L’éthyl tert-butyl éther (ETBE) et le méthyl tert-butyl éther (MTBE) sont des éthers carburants utilisés comme additifs dans les essences sans plomb. Du fait de leur utilisation massive, de nombreux cas de pollutions d’aquifères ont été répertoriés, en particulier pour le MTBE, et ces composés représentent donc un risque sanitaire potentiel. Des travaux récents ont permis de mettre en évidence différents micro-organismes capables de dégrader ces composés malgré leur faible biodégradabilité dans l'environnement. Néanmoins, une meilleure compréhension de l'écologie et de la régulation de ces capacités de dégradation permettrait une meilleure gestion de la bioremédiation de sites contaminés par l'ETBE ou le MTBE.L’objectif de la thèse, réalisée dans le cadre d'un projet ANR Blanc (MiOxyFun), est de mieux comprendre l'écologie des communautés microbiennes impliquées dans la dégradation de ces éthers et leur relation avec la régulation ainsi qu'avec les cinétiques de dégradation de ces composés par des membres spécifiques de ces communautés. Ainsi, à partir de différents échantillons environnementaux venant de sites pollués par l'ETBE ou le MTBE, des enrichissements ont pu être réalisés en laboratoire afin d'étudier leurs microflores. Ces enrichissements ont été étudiés notamment pour leurs cinétiques de dégradation, la composition de leurs communautés bactériennes, et pour l'isolement de souches bactériennes directement impliquées dans la dégradation de ces composés. L'étude des cinétiques de dégradation de l'ETBE ou du MTBE par différents enrichissements obtenus sur ETBE (cinq) et sur MTBE (six) a permis de montrer des profils de dégradation très différents. La dégradation était généralement lente et s'accompagnait d'un faible rendement en biomasse avec parfois accumulation transitoire de tert-butanol (TBA). Les capacités de dégradation d'autres composés des essences (BTEXs et n-alcanes) étaient aussi différentes d'un enrichissement à l'autre, le benzène, entre autres, étant dégradé par 10/11 enrichissements. Des techniques d'empreinte moléculaire (RISA, DGGE) ont permis de constater que les communautés bactériennes présentes dans les cinq enrichissements sur ETBE étaient différentes de celles sur les enrichissements sur MTBE. Les enrichissements sur ETBE ont fait spécifiquement l'objet d'une étude par analyse de banques de clones réalisées à partir des gènes codant l'ARNr 16S de ces enrichissements. Cette étude a montré la prédominance des Proteobacteria dans trois enrichissements, la prédominance des Acidobacteria dans un autre ainsi qu'une composition plus héterogène dans le cinquième. De plus, des Actinobacteria ont été détectées dans les 5 enrichissements.En parallèle, plusieurs souches possédant des capacités de dégradation ont été isolées des enrichissements: Rhodococcus sp. IFP 2040, IFP 2041, IFP 2042, IFP 2043 (dégradant l'ETBE jusqu'au TBA), une Betaproteobacteria IFP 2047 (dégradant l'ETBE), Bradyrhizobium sp. IFP 2049 (dégradant le TBA), Pseudonocardia sp. IFP 2050 (dégradant l'ETBE et le MTBE), Pseudoxanthomonas sp. IFP 2051 et une Proteobacteria IFP 2052 (dégradant le MTBE). Une étude par qPCR sur les gènes codant l'ARNr 16S a montré la prédominance de certaines souches isolées dans les enrichissements ETBE. Enfin, plusieurs gènes connus comme étant impliqués dans la dégradation des éthers carburants ont pu être mis en évidence dans les enrichissements et dans certaines des souches isolées. / ETBE and MTBE are fuel oxygenates added to unleaded gasoline to improve combustion. Due to their extensive use, numerous aquifers have been contaminated, particularly by MTBE. The use of ETBE and MTBE is considered to represent an environmental risk. Recent research has uncovered a range of microorganisms capable of degrading these compounds, even though their environmental half-lives are long. Improved understanding of the ecology and regulation of this degradative ability could improve the management of the ETBE and MTBE contaminated site remediation. The aim of this work, taking place in the framework of the ANR project MiOxyFun was to investigate the ecology of ETBE- and MTBE-degrading microbial communities and their relationship to the regulation and kinetics of ETBE- and MTBE-degradation by specific members of these communities. Several ETBE- and MTBE-degrading microbial communities were enriched in the laboratory from environmental samples from contaminated sites throughout the world. These enrichments were examined for their degradation kinetics, microbial community structure, and used to isolate specific community members actively degrading ETBE and/or MTBE. The ETBE or MTBE biodegradation kinetics of the five ETBE- and six MTBE- degrading enrichments demonstrated a diversity of biodegradation rates. Overall, biodegradation was generally slow and associated to a low biomass yield. Tert-butanol (TBA) was transiently produced in several cases. Biodegradation of other gasoline compounds (BTEXs and n-alkanes) was tested and varied among the enrichments studied. Benzene, however, was degraded in 10 out of the 11 enrichments. DNA fingerprinting techniques (RISA, DGGE) showed that the microflora present in the five ETBE enrichments were different from those of the MTBE enrichments. The ETBE enrichments were studied further by sequencing the 16S rRNA genes extracted, amplified and cloned from these enrichments. Proteobacteria dominated three of the ETBE enrichments, Acidobacteria in another one, and a more heterogeneous composition was found in the fifth ETBE enrichment. Actinobacteria were detected in all five enrichments. Several strains with ETBE or MTBE degradation capacities were isolated: Rhodococcus sp. IFP 2040, IFP 2041, IFP 2042, IFP 2043 (degrading ETBE to TBA),a Betaproteobacteria IFP 2047 (degrading ETBE), Bradyrhizobium sp. IFP 2047 (degrading TBA), Pseudonocardia sp. IFP 2050 (degrading ETBE and MTBE), Pseudoxanthomonas sp. IFP 2051 and a Proteobacteria IFP 2052 (degrading MTBE). Quantification of the 16S rRNA gene confirmed the relatively high number of these isolates in some of the ETBE enrichments. Several genes involved in ETBE and/or MTBE biodegradation were detected in some of the enrichments and in some of the isolated strains.

L'éthyl tert-butyl éther (ETBE) et le méthyl tert-butyl éther (MTBE) sont des éthers carburants utilisés comme additifs dans les essences sans plomb. Du fait de leur utilisation massive, de nombreux cas de pollutions d'aquifères ont été répertoriés, en particulier pour le MTBE, et ces composés représentent donc un risque sanitaire potentiel. Des travaux récents ont permis de mettre en évidence différents micro-organismes capables de dégrader ces composés malgré leur faible biodégradabilité dans l'environnement. Néanmoins, une meilleure compréhension de l'écologie et de la régulation de ces capacités de dégradation permettrait une meilleure gestion de la bioremédiation de sites contaminés par l'ETBE ou le MTBE.L'objectif de la thèse, réalisée dans le cadre d'un projet ANR Blanc (MiOxyFun), est de mieux comprendre l'écologie des communautés microbiennes impliquées dans la dégradation de ces éthers et leur relation avec la régulation ainsi qu'avec les cinétiques de dégradation de ces composés par des membres spécifiques de ces communautés. Ainsi, à partir de différents échantillons environnementaux venant de sites pollués par l'ETBE ou le MTBE, des enrichissements ont pu être réalisés en laboratoire afin d'étudier leurs microflores. Ces enrichissements ont été étudiés notamment pour leurs cinétiques de dégradation, la composition de leurs communautés bactériennes, et pour l'isolement de souches bactériennes directement impliquées dans la dégradation de ces composés. L'étude des cinétiques de dégradation de l'ETBE ou du MTBE par différents enrichissements obtenus sur ETBE (cinq) et sur MTBE (six) a permis de montrer des profils de dégradation très différents. La dégradation était généralement lente et s'accompagnait d'un faible rendement en biomasse avec parfois accumulation transitoire de tert-butanol (TBA). Les capacités de dégradation d'autres composés des essences (BTEXs et n-alcanes) étaient aussi différentes d'un enrichissement à l'autre, le benzène, entre autres, étant dégradé par 10/11 enrichissements. Des techniques d'empreinte moléculaire (RISA, DGGE) ont permis de constater que les communautés bactériennes présentes dans les cinq enrichissements sur ETBE étaient différentes de celles sur les enrichissements sur MTBE. Les enrichissements sur ETBE ont fait spécifiquement l'objet d'une étude par analyse de banques de clones réalisées à partir des gènes codant l'ARNr 16S de ces enrichissements. Cette étude a montré la prédominance des Proteobacteria dans trois enrichissements, la prédominance des Acidobacteria dans un autre ainsi qu'une composition plus héterogène dans le cinquième. De plus, des Actinobacteria ont été détectées dans les 5 enrichissements.En parallèle, plusieurs souches possédant des capacités de dégradation ont été isolées des enrichissements: Rhodococcus sp. IFP 2040, IFP 2041, IFP 2042, IFP 2043 (dégradant l'ETBE jusqu'au TBA), une Betaproteobacteria IFP 2047 (dégradant l'ETBE), Bradyrhizobium sp. IFP 2049 (dégradant le TBA), Pseudonocardia sp. IFP 2050 (dégradant l'ETBE et le MTBE), Pseudoxanthomonas sp. IFP 2051 et une Proteobacteria IFP 2052 (dégradant le MTBE). Une étude par qPCR sur les gènes codant l'ARNr 16S a montré la prédominance de certaines souches isolées dans les enrichissements ETBE. Enfin, plusieurs gènes connus comme étant impliqués dans la dégradation des éthers carburants ont pu être mis en évidence dans les enrichissements et dans certaines des souches isolées.

Les bactéries qui sont des sources prolifiques d'antibiotiques et des fournisseurs importants d’agents pharmaceutiques peuvent produire une grande variété de métabolites. Ainsi, la découverte de métabolites issus bactéries est un nouveau challenge pour les chimistes. Parmi ces sources, les lichens sont admis comme niches intéressantes de nouvelles bactéries et de nouveaux composés bactériens. Par conséquent, les communautés de micro-organismes associées aux lichens sont devenues des sources prometteuses pour la production de composés naturels actifs. Dans cette thèse, nous avons concentré notre travail sur l'isolement des bactéries de Rhizocarpon geogaphicum, l'un des lichens crustacés les plus populaires vivant sur la roche. Parmi les souches isolées, Paenibacillus odorifer a été sélectionnée pour poursuivre les travaux visant à produire des composés actifs. Après des étapes d’optimisation de culture, l’étude des extraits issus des cultures de P. odorifer soit par le bioréacteur soit en Erlenmeyer a permis l’isolement des métabolites : un polysaccharide antioxydant, deux dérivés tert-butylphénoliques cytotoxiques issus de la bioaccumulation et de la biotransformation de précurseurs, d'un nouvel alcaloïde cytotoxique, de deux diols, de deux dérivés de type furfural et quelques autres composés connus. Des hypothèses de biosynthèse ont pu être proposés pour certains composés. La diversité des métabolites isolés de P. odorifer indique que cette espèce possède un grand potentiel de production des composés actifs et est une bactérie utilisatrice de substrats tert-butyl phénoliques. / Bacteria which are prolific sources of antibiotics and important suppliers to the pharmaceutical agents can produce a wide variety of metabolites. Thus finding metabolites from the bacterial lineages represented new interests for chemists. Among that, lichens are admitted as a rich source of new bacterial lineages and novel bacterial compounds. Therefore, microorganism communities associated with lichens became significant subjects as great potential for the production of active natural compounds. In this thesis, we focus our work on the isolation of bacterial lineages from the lichen Rhizocarpon geographicum, one of the most popular crustose lichens dwelling on the rock. Among the strains isolated, Paenibacillus odorifer was selected for further work to produce active compounds. After the culture optimization steps, the study of extracts from the P. odorifer cultures either in the bioreactor or in Erlenmeyer flask led to the production of metabolites: an antioxidant polysaccharide, two cytotoxic tert-butylphenol derivatives which came from the bioaccumulation and biotransformation of precursors, a novel and cytotoxic alkaloid compound, two diol compounds, two furfural derivatives and some other known compounds. Putative biosynthetic pathways have been proposed for some compounds. The diversity of metabolites isolated from P. odorifer highlighted that this species possessed a great potential of the production active compounds and were a new case of tert-butyl phenol utilizing bacterium.

Methyl tert-butyl ether (MTBE) has been used as a gasoline additive to improve the combustion efficiency and to replace lead since 1978. It is the most commonly used oxygenate now due to its low cost, convenience of transfer, and ease of blending and production. MTBE has become a prevalent groundwater contaminant because it is widely used and it has been disposed inappropriately. MTBE has been demonstrated an animal carcinogen. The US Environmental Protection Agency (US EPA) has temporarily classified MTBE as a possible human carcinogen and has set its advisory level for drinking water at 20-40 µg/L based on taste and odor concerns. The Taiwan Environmental Protection Administration (TEPA) also classifies it as the Class IV toxic chemical substances. Currently, natural attenuation (NA) as well as natural bioremediation or enhanced bioremediation are attractive remediation options for contaminated sites due to their economic benefit and environmental friendly. In general, in situ microorganisms at the contaminated site play a very important role in site restoration. Although early studies suggested that the biodegradability of MTBE was not significant, recent laboratory and field reports reveal that MTBE can be biodegraded under aerobic and anaerobic conditions. In addition, evidences and some successful cases of MTBE attenuation have been reported that make natural attenuation a considerable remedial strategy. However, the biodegrading rate might decrease if the nutritional and physiological requirements are not met. Thus, it is important to assess the biodegradability of natural microorganisms under various site conditions to obtain optimal remedial conditions. Contributions of intrinsic biodegradation and other abiotic mechanisms to the removal and control of contaminants should also be evaluated to provide sufficient information for remedial option determination. Moreover, isolation and identification of the dominant native microorganisms will be helpful to following remediation tasks. In the first part of this study, microcosm study and microbial identification technologies (denaturing gradient gel electrophoresis, DGGE) were applied to assess the biodegradability of MTBE by indigenous microbial consortia and to identify the dominant microorganisms at a MTBE-contaminated site (Site A). In the second part of this study, thorough field investigations were performed to evaluate the occurrence of natural attenuation of MTBE at two MTBE-contaminated sites (Site A and Site B). In addition, a natural attenuation model, BIOSCREEN, was performed to assess the effectiveness of natural attenuation on MTBE containment. The main objectives of this study contained the following: (1)Evaluate MTBE biodegradability under different redox conditions by the indigenous microorganisms. (2)Determine the dominant native microorganisms in MTBE biodegradation for further application. (3)Assess the feasibility of using natural attenuation to control the MTBE plume. (4)Evaluate the contributions of intrinsic biodegradation patterns on natural attenuation processes by BIOSCREEN. Results from the microcosm study reveal that MTBE could be biodegraded by aquifer sediments without the addition of extra carbon sources under aerobic conditions. The production of tert-butyl alcohol (TBA), a degradation byproduct of MTBE, was detected. Complete removal of TBA was also observed by the end of the experiment. Results from aerobic microcosms study indicate that oxygen might be the major limiting factor of MTBE biodegradation at Site A. Thus, MTBE at this site could be removed via natural biodegradation processes with the supplement of sufficient oxygen. Microcosm study with extracted supernatant of aquifer sediments as the inocula show that the indigenous microorganisms were capable of using MTBE as the sole carbon and energy source. The calculated MTBE degradation rate was 0.597 mg/g cells/h or 0.194 nmole/mg cells/h. No MTBE removal was observed under various anaerobic conditions. Results suggest that aerobic biodegradation was the dominant degradation process and aerobic bioremediation might be a more appropriate option for the site remediation. According to the results of DGGE analysis, aerobic MTBE-biodegrading bacteria, Pseudomonas sp. and Xanthomonas sp., might exist at this site. Although results of microcosm study show that MTBE could not be degraded under anaerobic conditions, the microbial identification indicates that some novel anaerobic microbes, which could degraded MTBE, might be present at this site. In addition, anaerobic microbes caused the consumption of electron acceptors (e.g., nitrate, ferric iron) and removal of benzene, toluene, ethylbenzene, xylenes (BTEX), 1,2,4-trimethyl benzene (1,2,4-TMB), and 1,3,5-trimethyl benzene (1,3,5-TMB) (TMBs) in the anaerobic microcosms. These results also indicate that the potential of anaerobes activities was high at Site A. Based on the results from the field investigation, natural attenuation of MTBE was occurring at both sites. MTBE plume at Site B could be effectively controlled via natural attenuation processes. Nevertheless, MTBE plume at Site A has migrated to a farther downgradient area and passed the boundary of the site. Field investigation results indicate that the natural attenuation mechanisms of MTBE at both sites were occurring with the first-order attenuation rates of 0.0021 and 0.0048 1/day at Sites A and B, respectively. According to BIOSCREEN simulation, biodegradation was responsible for 78% and 59% of MTBE mass reduction at Sites A and B, respectively. The intrinsic biodegradation had significant contributions on the control of MTBE plumes. Moreover, the dilution and dispersion processes might be the major mechanisms for the attenuation of MTBE in the downgradient areas. However, results also reveal that intrinsic biological processes might still fail to contain the plume if the selected point of compliance is not appropriate. Results of this study suggest that natural attenuation might be feasible to be used as a remedial option for the remediation of MTBE-contaminated site on the premise that (1) detailed site characterization has been conducted, and (2) the occurrence and effectiveness of natural attenuation processes have been confirmed. Based on the results from the field investigation and laboratory microcosm studies, MTBE could be biodegraded by natural microbial populations at the studied sites under both aerobic and anaerobic conditions and natural attenuation would be applied as a remedial option at MTBE-contaminated sites. Results from this study would be useful in determining the favorable bioremediation conditions and designing an efficient and cost-effective bioremediation system such as monitored natural attenuation (MNA) or in situ or on-site MTBE bioremediation system for field application.

Depuis le milieu du 20ème siècle, les techniques de récupération assistée du pétrole (RAP) ont été beaucoup utilisées afin d’améliorer le rendement d’extraction du pétrole brut. Des polyacrylamides modifiés hydrophobiquement ont montré des propriétés intéressantes en tant que modificateurs de rhéologie en vue d’une application en RAP. Cependant, la synthèse de polymères hydrosolubles comportant des segments hydrophobes le long de la chaîne est un défi puisque les monomères hydrophiles et hydrophobes sont rarement miscibles dans le même solvant. Le but de cette thèse a été de développer des copolymères à base d’acrylamide pouvant ensuite être utilisés en RAP. Au cours de l’extraction du pétrole, des polymères possédant des longues chaînes sont mélangés à l’eau puis injecté dans le puits afin de pousser le pétrole brut en dehors de celui-ci. Le polymère a alors pour rôle d’accroître la viscosité de l’eau de sorte qu’elle puisse déplacer plus efficacement le pétrole hors du réservoir. Au cours de cette thèse, la technique RAFT/MADIX a été combinée à la polymérisation micellaire dans le but de synthétiser de nouveaux copolymères associatifs d’architectures contrôlées et possédant de nombreux blocs hydrophobes distribués le long de la chaîne. En phase aqueuse, les segments hydrophobes s’associent et forment un réseau viscoélastique résultant en une augmentation de la viscosité. La combinaison de RAFT/MADIX avec la polymérisation micellaire nous permet également de limiter la dérive en composition observée en polymérisation micellaire conventionnelle. Dans un premier temps, l’étude de l’effet des monomères et de sels sur le comportement des micelles de tensio-actif a montré que la présence de NaAMPS gouverne le procédé de micellisation du SDS par rapport à l’acrylamide. Cette étude a également prouvé qu’il est possible de prévoir l’évolution du NH en fonction de la composition du milieu réactionnel au cours de la synthèse. La compréhension des interactions tensio-actif-monomères permet ainsi de prévoir la microstructure du polymère. Dans un second temps, il a été démontré que les polymères associatifs synthétisés ici se comportent comme des chaînes vivantes et peuvent être étendus avec de l’acrylamide pour former des polymères à bloc de haute masse molaire. L’addition d’un sel monovalent tel que le chlorure de sodium (NaCl) s’est révélée un outil efficace pour contrôler la microstructure du polymère, rendant possible le passage d’une composition de type gradient vers une composition plus homogène (rmonomères hydrophiles/tBS proche de 1). Enfin, l’analyse des relations structure-propriété a montré que tous les polymères synthétisés possèdent un comportement associatif et accroissent la viscosité de l’eau comparé à l’homopolyacrylamide. La présence de NaAMPS dans la chaîne diminue fortement la viscosité du polymère alors qu’elle n’est pas affectée par celle du chlorure de sodium. Le polymère présentant les meilleures propriétés en vue d’une application en RAP est P(Am90-co-AMPS10-co-(Am/NaCl)10-co-tBS1). L’utilisation de NaCl assure de bonnes propriétés rhéologiques tandis que le NaAMPS favorise la solubilité du copolymère en solution aqueuse. / Since the middle of the 20th century, enhanced oil recovery (EOR) techniques have been used to improve the extraction of crude oil. Hydrophobically modified polyacrylamides have shown great properties as rheology modifiers for EOR purposes. However, the synthesis of water-soluble polymers containing hydrophobic segments along the backbone is challenging as hydrophilic and hydrophobic monomers are rarely soluble in the same solvent. The aim of this project was to develop acrylamide-based copolymers for enhanced oil recovery (EOR). In this process, long chain polymer molecules are mixed with water and injected into the oil field in order to drive the oil out of the well. The polymer serves to increase the viscosity of the water, making it more effective at displacing the oil. In this thesis, RAFT/MADIX technique has been combined with micellar polymerization in order to synthesize new associative copolymers with controlled architectures and numerous hydrophobic blocks distributed along the backbone. The associations generate a viscoelastic network in aqueous media resulting in a viscosity increase. The combination of RAFT/MADIX with micellar polymerization allows us to limit the compositional drift observed in conventional micellar polymerization. First, the study of the effect of monomers and salts on the behavior of surfactant micelles has shown that the influence of NaAMPS dominates that of acrylamide in its effect on the micellization behavior of SDS. This study has proven that it is possible to predict how NH would vary depending on the composition of the reactive medium during the synthesis. Understanding the surfactant-monomer interactions thus enables prediction of the microstructure of the polymer. In a second step, it has been demonstrated that the associative polymeric chains were living chains and could be further extended to high molar masses with acrylamide. Increasing the content of NaAMPS in the hydrophilic backbone led to a significant increase in the reactivity ratio. The addition of monovalent salt (especially NaCl) is a useful tool to control the polymer microstructure, enabling switching between a gradient-type composition and a more homogeneous one (rhydrophilic monomers/tBS close to 1). Finally, the examination of structure-property relationships of the associative polymers has highlighted that all polymers displayed associating properties as well as enhanced viscosity compared to homopolyacrylamide. The polymer viscosity strongly decreased upon incorporation of NaAMPS within the backbone while it was unaffected by the presence of NaCl during the synthesis. The polymer displaying the best properties for use in EOR is P(Am90-co-AMPS10-co-(Am/NaCl)10-co-tBS1). The use of NaCl ensures good rheological properties while AMPS enhances the solubility of the copolymer.

<div> <div> <div> <p>The Effective Fragment Potential (EFP) is a quantum-mechanical based model potential for accurate calculations of non-covalent interactions between molecules. It can be coupled with ab initio methods in so-called QM/EFP models to explore the electronic properties of extended molecular systems by providing rigorous description of surrounding environments. The current EFP formulation is, however, not well suited for large-scale simulations due to its inherent limitation of representing effective fragments as rigid structures. The process of utilizing EFP method for the molecular systems with flexible degrees of freedom entails multiple sets of parameter calculations requiring intensive computational resources. This work presents development of the EFP method for describing flexible molecular systems, so-called Flexible EFP. To validate the applicability of the Flexible EFP method, extensive benchmark studies on the amino acid interactions, binding energies, and electronic properties of flavin chromophore of the cryptochrome protein have been demonstrated. In addition to methodological developments, excitonic properties of the Fenna-Matthews-Olson (FMO) photosynthetic pigment-protein complex are explored. In biological systems where intermolecular interactions span a broad range from non-polar to polar and ionic forces, EFP is superior to the classical force fields. In the present study, we demonstrate excellent performance of the QM/EFP model for predicting excitonic interactions and spectral characteristics of the FMO wildtype complex. We characterize the key factors for accurate modeling of electronic properties of bacteriochlrophyll a (BChl a) photosynthetic pigments and suggest a robust computational protocol that can be applied for modeling other photosynthetic systems. Developed computational procedures were also successfully utilized to elucidate photostability and triplet dynamics in the FMO complex and spectroscopic effects of single-point mutagenesis in FMO. A combination of polarizable EFP molecular dynamics and QM/EFP vibrational frequency calculations were also applied to understanding and interpreting structures and Raman spectroscopy of tert-butyl alcohol solutions. </p> </div> </div> </div>

Molecular simulations have become an important tool within the last few decades to understand physical processes in the microscale and customize processes in the macroscale according to the understanding developed at the molecular level. We present results from molecular simulations we performed to study the adsorption of hazardous organics in nanoporous materials. Adsorption of water in silicalite, a hydrophobic material, and the effect of defects were investigated by Monte Carlo simulations. Silanol nests were found to have a big impact on the hydrophobicity of silicalite. Even the presence of one silanol nest per unit cell caused a significant amount of water adsorption. We also investigated the effect of four different cations, H+, Li+, Na+, and Cs+. Their presence in silicalite increased the amount of water adsorbed. Monte Carlo and molecular dynamics simulations of MTBE adsorption in silicalite, mordenite, and zeolite beta with different Na+ cation loadings were carried out. The results revealed the importance of the pore structure on the adsorption of MTBE. Although these three zeolites have similar pore volumes, zeolite beta, with its pore structure which is mostly accessible to MTBE molecules, is predicted to adsorb significantly more MTBE than silicalite and mordenite. The Na+ cation loading, up to four cations does not have a significant effect on the adsorption capacity of the zeolites studied here, however, for silicalite and zeolite beta increasing the Na+ content increases the amount adsorbed at very low pressures. A new force field was developed by Monte Carlo simulations for 1,4-Dioxane, an important industrial solvent which has emerged as a potentially significant threat to human health. The objective was to develop reliable atom-atom interaction parameters to use in the simulations of the adsorption of 1,4-Dioxane in different adsorbent materials. Predictions of critical point data, liquid and vapour densities, heats of vaporization with our new force field were in good agreement with experimental data and outperformed predictions from simulations with other force field parameters available in literature. To obtain the isotherms of MTBE and 1,4-Dioxane adsorption from water in silicalite Monte Carlo simulations were performed. First we optimized the interaction parameters between the atoms of silicalite and the atoms of MTBE and 1,4-Dioxane. Using these optimized parameters we simulated the adsorption of MTBE and 1,4-Dioxane from water in silicalite. Despite the agreement of simulated and experimental isotherms of pure components, simulated isotherms of MTBE and 1,4-Dioxane adsorption from water in silicalite did not yield satisfactory results. Monte Carlo simulations were performed to investigate the affinity between two hazardous materials, PFOA and 1,1-DCE; and four different zeolites. Binding energies and Henry's constants were computed. For both PFOA and 1,1-DCE zeolite-beta had the highest affinity. The affinity between activated carbon with polar surface groups and water, and 1,4-Dioxane were investigated to shed light on why activated carbon is ineffective to remove 1,4-Dioxane from water. Results showed that presence of polar surface groups increased the affinity between water and activated carbon, while the affinity between 1,4-Dioxane and activated carbon was not effected by the presence of polar surface groups.

A technology for optimization of potential parameters from condensed phase simulations (POP) is discussed and illustrated. It is based on direct calculations of the derivatives of macroscopic observables with respect to the potential parameters. The derivatives are used in a local minimization scheme, comparing simulated and experimental data. In particular, we show that the Newton Trust-Region protocol allows for accurate and robust optimization. POP is illustrated for a toy problem of alanine dipeptide and is applied to folding of the peptide WAAAH. The helix fraction is highly sensitive to the potential parameters while the slope of the melting curve is not. The sensitivity variations make it difficult to satisfy both observations simultaneously. We conjecture that there is no set of parameters that reproduces experimental melting curves of short peptides that are modeled with the usual functional form of a force field. We then apply the newly developed technology to study the liquid mixture of tert-butanol and water. We are able to obtain, after 4 iterations, the correct phase behavior and accurately predict the value of the Kirkwood Buff (KB) integrals. We further illustrate that a potential that is determined solely by KB information, or the pair correlation function, is not necessarily unique. / text

Expansionen komprimierter Fluide finden breite Anwendung und werden hier mit Hilfe der Schwingungsspektroskopie untersucht. Dabei ist der Aggregatzustand der bei der Zerstäubung entstehenden Partikel von besonderem Interesse. In Abhängigkeit von Stagnationsdruck, Düsentemperatur, und Düsenabstand werden neben Lachgas tert-Butylalkohol und n-Pentan hinsichtlich ihrer Partikelbildung charakterisiert. Die Ergebnisse bilden eine Grundlage für die Expansion nahkritischer Lösungen.

This work reports a novel biocompatible and biodegradable arborescent amphiphilic polypept(o)ides-based polymer poly(γ-benzyl L-glutamate)-co-poly(γ-tert-butyl L-glutamate)-g-polysarcosine (P(BG-co-Glu(OtBu))-g-PSar) as a smart dual-responsive targeting drug vehicle. The synthesis pathway in this work highlighted the grafting reaction improvement of the polypeptides core and using polysarcosine (PSar) corona as a coating agent. The responsiveness of the polymer is caused by the pH sensitivity of the polypeptides and the reducible linker introduced between the core and corona. While adding the tripeptides arginine, glycine, and aspartate (RGD) as a ligand on the unimolecular micelles’ surface increases the targeting ability of the polymer. During the building of the arborescent, the coupling sites were controlled by using γ-tert-butyl L-glutamate (Glu(OtBu)-NCA) as a second monomer besides γ-benzyl L-glutamate (BG-NCA) since the deprotection conditions are different for Bz and tBu groups. Knowing the coupling sites provides accuracy in calculating the molecular weight (MW) of graft polymers since it facilitates the determination of the grafting yield (Gy). The arborescent unimolecular micelles were formulated by coating the hydrophobic core with PSar hydrophilic corona. The distribution of the coupling sites on the substrates in the last generation yielded end-grafted and randomly-grafted unimolecular micelles. A comparison between those micelles by DLS, TEM, and AFM revealed that the end-grafted micelles showed more uniformity in terms of morphology and size distribution. Also, the surface modification achieved via RGD addition increased the shape uniformity and contributed to avoiding the particles’ aggregation. The sizes and shapes of end-grafted unimolecular micelles match the drug delivery systems (DDSs) requirements. Doxorubicin (DOX) was encapsulated physically into the unimolecular micelles to study the drug loading capacity (DLC) and drug loading efficiency (DLE). The maximum DLC and DLE were 14% and 28% w/w, respectively. The drug release profiles were investigated in healthy- and cancer-mimicking media. The results showed that in cancer-mimicking microenvironment (low pH and high glutathione (GSH) content), the drug diffused out the micelles faster. In addition, a slower drug release was noticed for RGD decorated unimolecular micelles. Finally, the biocompatibility, cytotoxicity, and cellular uptake of the unimolecular micelles were studied. The obtained results were promising as the arborescent unimolecular micelles showed excellent biocompatibility; meanwhile, the DOX-loaded unimolecular micelles have good cytotoxicity compared to free DOX. RGD targeting ligand contributes to increasing the cellular uptake and supports the sustained release.