ABSTRACT To compare the degree of biodegradation of petroleum hydrocarbons in sediments from Ikarama and Okwori in the Niger delta, Nigeria, concentrations of n-alkanes and polycyclic aromatic hydrocarbons in the sediments were measured. Analysis was conducted with gas chromatography using mass spectrometry detector. While the decrease in concentrations of n-alkanes and polycyclic aromatic hydrocarbons confirmed the process of biodegradation in the sediments it was not solely fit to substantiate the degree of biodegradation in the sediments. Hence the percentage proportion of n-alkanes and polycyclic aromatic hydrocarbons was used. The degree of biodegradation of n-alkanes in both Okwori and Ikarama was almost similar. However, it was observed that polycyclic aromatic hydrocarbons were biodegraded in Okwori sediments than Ikarama sediments and this indicates the degree of biodegradation of petroleum hydrocarbons impacted sediments in Okwori is greater than that of Ikarama.

Les mécanismes chimiques détaillés de combustion des carburants à basse température font intervenir un nombre important d'espèces et de réactions. Les logiciels de génération automatique permettent de faire face à cette complexité. Ces logiciels font appel à des corrélations permettant de prédire les propriétés thermodynamiques (enthalpies de formation, entropies et capacités calorifiques) et cinétiques (constantes de vitesse) associées aux espèces et aux réactions. Ces corrélations reposent cependant, généralement, sur un nombre limité de données de référence. Dans ce travail de thèse, nous avons utilisé une méthode faisant appel à la chimie quantique pour développer de nouvelles corrélations pour le logiciel de génération automatique EXGAS. En ce qui concerne les données thermodynamiques, des groupes de Benson associés aux fonctions hydroxyle et hydroperoxyle ont été évalués, ainsi que des énergies de liaison C-H, et O-H de fonctions hydroxyle et hydroperoxyle. En ce qui concerne les données cinétiques, nous nous sommes plus particulièrement intéressés aux réactions d'isomérisation des radicaux alkylperoxyles et hydroxyalkylperoxyles, ainsi qu'aux réactions de formation d'éthers cycliques. Nous avons également étudié l'impact de certaines règles de globalisation et introduit de nouvelles réactions pour rendre compte de la formation de produits de combustion jusqu'ici négligés ou sommairement prédits par les modèles. Les résultats obtenus ont été introduits dans des mécanismes chimiques détaillés générés par EXGAS. Ces mécanismes ont servi de base pour réaliser des simulations de la combustion du propane et du n-butane à basse température. Les résultats de ces simulations ont été comparés à des résultats expérimentaux récents afin de valider les calculs effectués. Les résultats des simulations ont montré que la prise en compte des nouvelles corrélations ainsi que la modification des règles de globalisation dans les mécanismes permettaient d'améliorer la prédiction de certains polluants mineurs pouvant avoir un impact sanitaire et environnemental majeur / Detailed chemical kinetic models for the low-temperature combustion of fuels involve a large number of species and reactions. Automatic generation of kinetic mechanisms is a powerful tool to deal with this complexity. These softwares are based on correlations that predict thermodynamic (enthalpies of formation, entropies and heat capacities) and kinetic (rate constants) properties associated with species and reactions. However, these correlations are generally based on a limited number of reference data. In this work, we used a method involving quantum chemistry to develop new correlations for EXGAS, a software for the automatic generation of kinetic mechanisms. For thermodynamic data, new Benson groups associated with hydroxyl and hydroperoxyl functions were evaluated. Bond dissociation energies of C-H bonds and O-H bonds of these groups were also evaluated. For the kinetic data, we focused our study on the isomerization reactions of alkylperoxyl and hydroxyalkylperoxyl radicals, and on the reactions of formation of cyclic ethers. We also studied the impact of some rules of globalization and introduced new reactions to account for the formation of minor combustion products usualy neglected or imperfectly predicted by the current models. The results obtained have been introduced into detailed chemical mechanisms generated by EXGAS. These mechanisms were used to simulate the combustion of propane and n-butane at low temperatures. The results of these simulations were compared with recent experimental results to validate the calculations. The simulations showed that taking into account the new correlations and the modifications of the rules of globalization in the mechanisms improved the prediction of some minor pollutants that can have major health and environmental impacts

Os marcadores orgânicos moleculares (hidrocarbonetos alifáticos, esteróis e álcoois) em amostras de sedimentos superficiais e de testemunhos curtos coletados em diápiros e pockmarks localizados no talude sul do Brasil, foram utilizados para identificar as possíveis contribuições biogênicas (autóctones / alóctones). De modo geral, tanto nas amostras superficiais como ao longo dos testemunhos, o maior acúmulo de carbono orgânico total nos pockmarks foi observado, indicando o possível aprisionamento de sedimentos e de matéria orgânica no interior das concavidades. A presença de β-sitosterol, campesterol, álcoois e n-alcanos pesados, indicaram contribuições terrígenas para a área de estudo, que pode ser advinda da descarga continental do Rio da Prata, uma vez que a predominância terrígena é proveniente das pradarias, típica vegetação do Uruguai e do sul do Rio Grande do Sul. O transporte de sedimentos terrígenos ocorre em direção ao norte, ao longo da plataforma continental sul brasileira, pela Corrente Costeira do Brasil. A presença de detritos de fitoplâncton e zooplâncton também ocorre devido à influência dos nutrientes do Rio da Prata. As possíveis liberações de gás/fluido, que sustentaram ecossistemas quimiossintéticos em diferentes intervalos de dois testemunhos em pockmark e diápiro foram constatadas através da presença relativamente maior de n-alcanos leves com número par de carbonos. / Organic molecular markers (aliphatic hydrocarbons, sterols and alcohols) in superficial and short cores sediment samples collected in diapirs and pockmarks located in the southern slope of Brazil were used in order to identify the possible biogenic contributions (autochthonous / allochthonous). In general, in surface samples and throughout the cores samples, the greatest accumulation of total organic carbon in the pockmarks was observed, indicating the possible entrapment of sediments and organic matter inside the concavities. The presence of β-sitosterol, campesterol, alcohols and heavy n-alkanes indicated terrigenous contributions to the study area, which may be due to the continental discharge of Río de la Plata, since the terrigenous predominance is due to the prairies, a typical vegetation of Uruguay and the south of Rio Grande do Sul. The terrigenous sediments transport is carried through the North, along the Brazilian continental shelf, by the Coastal Stream of Brazil. The presence of phytoplankton and zooplankton debris is also due to the influence of the nutrients contribution from Río de la Plata. Possible gas / fluid releases, which sustained chemosynthetic ecosystems at different intervals of two pockmark and diaper cores, were verified by the relative predominance of even-numbered carbon n-alkanes.

O gênero Croton possui aproximadamente 1300 espécies amplamente distribuídas em zonas tropicais e subtropicais do novo e velho mundo e é o segundo maior gênero de Euphorbiaceae. No presente trabalho, foram analisadas a composição e a morfologia das ceras foliares cuticulares de 13 espécies de Croton. Para a maioria das espécies, foram amostrados três indivíduos. A morfologia das ceras foi analisada por microscopia eletrônica de varredura. Diversos tipos de depósitos cerosos foram observados (amorfos, plaquetas, grânulos), principalmente na face adaxial e caracterizando grupos de espécies. A observação dos padrões de depósitos cerosos de várias espécies foi prejudicada na face abaxial, devido à alta densidade de tricomas. As ceras foram extraídas por três imersões consecutivas das folhas em diclorometano e a separação das classes dos constituintes foi feita por cromatografia em camada delgada preparativa. A análise da distribuição dos constituintes foi realizada por cromatografia a gás acoplada a espectrometria de massas. n-Alcanos e álcoois primários foram detectados em todos os indivíduos analisados. Triterpenos também são muito comuns, não tendo sido detectados em apenas uma espécie. Os esteroides são constituintes raros nas espécies analisadas. Os resultados da distribuição de n-alcanos, álcoois primários e triterpenos foram utilizados para o estabelecimento de afinidades químicas por meio de análises de agrupamento pelo método UPGMA, empregando-se distâncias euclidianas (n-alcanos e álcoois) e coeficiente de DICE (triterpenos), baseando-se na distribuição de cada classe de constituinte isoladamente e combinando-se as distribuições de n-alcanos e álcoois primários. Não se notou congruência entre as topologias dos dendrogramas de afinidades químicas e a filogenia molecular do gênero. Observou-se coerência entre algumas afinidades químicas e características morfológicas, como tipos de tricomas foliares e presença de glândulas peciolares. A distribuição de n-alcanos, álcoois primários e triterpenos mostraram-se úteis como caracteres da maioria das espécies analisadas. Entre os constituintes analisados, distribuição de álcoois primários revelou-se o melhor marcador para a caracterização de espécies. A variação intraespecífica, no entanto, impede que esses caracteres sejam úteis como marcadores taxonômicos de algumas espécies de Croton / Croton comprises nearly 1300 species distributed in tropical and subtropical areas of either the New or Old Worlds, making up the largest genus of Euphorbiaceae. In the present work, the chemical composition and the morphology of the foliar cuticular waxes of 13 species of Croton were analized. Three individuals were sampled for analyses of most species. The morphology of the waxes was analyzed by scanning electron microscopy. Several types of wax deposits were observed (amorph, platlets, granules), chiefly on the adaxial side, characterizing groups of species. The observation of wax deposits on the abaxial side was hampered in several species due to the high density of trichomes. The cuticular wax was extracted by three successive immersions of the leaves in dichloromethane, and the separation of the constituent classes was achieved by preparative thin layer chromatography. The analyses of the distribution of the constituents were performed by gas chromatography coupled to mass spectrometry. n-Alkanes and primary alcohols were detected in all analyzed individuals. Triterpenes were also very common, having not been detected in only one species. Steroids are rare constituents in the analyzed species. The results of the distribution of n-alkanes, primary alcohols and triterpenes were used for the establishment of chemical affinities using cluster analysis by the UPGMA method and Euclidean distances (n-alkanes and alcohols) and DICE coefficient, based on the distribution of each constituent class alone and combining the distribution of n-alkanes and primary alcohols. No congruence was noted between the topologies of the dendrograms of chemical affinity and the molecular phylogeny of the genus. Coherence was observed between chemical affinities and morphologic characteristics, such as types of foliar trichomes and petiolar glands. The distribution of n-alkanes, primary alcohols and triterpenes were shown to be useful as characters for most analyzed species. Among the constituents analyzed, the distribution of primary alcohols was the best marker for species characterization. Intraspecific variation, however, precludes the use of these characters as taxonomic markers of some Croton species

Molecular simulation is applied to understanding the behaviour of alkane liquids with the eventual goal of being able to predict the viscosity of an arbitrary alkane mixture from first principles. Such prediction would have numerous scientific and industrial applications, as alkanes are the largest component of fuels, lubricants, and waxes; furthermore, they form the backbones of a myriad of organic compounds. This dissertation details the creation of a potential, a model for how the atoms and molecules in the simulation interact, based on a systematic approximation of the quantum mechanical potential energy surface using machine learning. This approximation has the advantage of producing forces and energies of nearly quantum mechanical accuracy at a tiny fraction of the usual cost. It enables accurate simulation of the large systems and long timescales required for accurate prediction of properties such as the density and viscosity. The approach is developed and tested on methane, the simplest alkane, and investigations are made into potentials for longer, more complex alkanes. The results show that the approach is promising and should be pursued further to create an accurate machine learning potential for the alkanes. It could even be extended to more complex molecular liquids in the future.

Os marcadores orgânicos moleculares (hidrocarbonetos alifáticos, esteróis e álcoois) em amostras de sedimentos superficiais e de testemunhos curtos coletados em diápiros e pockmarks localizados no talude sul do Brasil, foram utilizados para identificar as possíveis contribuições biogênicas (autóctones / alóctones). De modo geral, tanto nas amostras superficiais como ao longo dos testemunhos, o maior acúmulo de carbono orgânico total nos pockmarks foi observado, indicando o possível aprisionamento de sedimentos e de matéria orgânica no interior das concavidades. A presença de β-sitosterol, campesterol, álcoois e n-alcanos pesados, indicaram contribuições terrígenas para a área de estudo, que pode ser advinda da descarga continental do Rio da Prata, uma vez que a predominância terrígena é proveniente das pradarias, típica vegetação do Uruguai e do sul do Rio Grande do Sul. O transporte de sedimentos terrígenos ocorre em direção ao norte, ao longo da plataforma continental sul brasileira, pela Corrente Costeira do Brasil. A presença de detritos de fitoplâncton e zooplâncton também ocorre devido à influência dos nutrientes do Rio da Prata. As possíveis liberações de gás/fluido, que sustentaram ecossistemas quimiossintéticos em diferentes intervalos de dois testemunhos em pockmark e diápiro foram constatadas através da presença relativamente maior de n-alcanos leves com número par de carbonos. / Organic molecular markers (aliphatic hydrocarbons, sterols and alcohols) in superficial and short cores sediment samples collected in diapirs and pockmarks located in the southern slope of Brazil were used in order to identify the possible biogenic contributions (autochthonous / allochthonous). In general, in surface samples and throughout the cores samples, the greatest accumulation of total organic carbon in the pockmarks was observed, indicating the possible entrapment of sediments and organic matter inside the concavities. The presence of β-sitosterol, campesterol, alcohols and heavy n-alkanes indicated terrigenous contributions to the study area, which may be due to the continental discharge of Río de la Plata, since the terrigenous predominance is due to the prairies, a typical vegetation of Uruguay and the south of Rio Grande do Sul. The terrigenous sediments transport is carried through the North, along the Brazilian continental shelf, by the Coastal Stream of Brazil. The presence of phytoplankton and zooplankton debris is also due to the influence of the nutrients contribution from Río de la Plata. Possible gas / fluid releases, which sustained chemosynthetic ecosystems at different intervals of two pockmark and diaper cores, were verified by the relative predominance of even-numbered carbon n-alkanes.

Highly fluorinated organic compounds are emerging environmental contaminants of concern, due to their persistence, ubiquitous distribution, bioaccumulation potential and toxicity. Ski waxes are sources of highly fluorinated chemicals to the environment that have not been investigated so far. Some contain fluorinated additives such as semifluorinated n-alkanes (SFAs). This thesis investigated the fate of SFAs after abrasion onto snow through skiing activities. Furthermore, perfluorinated alkyl acids (PFAAs) were found to be present in fluorinated ski waxes. A lot of attention has been paid to elucidating the environmental fate of PFAAs during the past decade. However, nothing was known so far about their release from melting snow packs. Analytical methods for quantification of SFAs in different environmental matrices were developed. The methods were used to investigate the fate of SFAs during snow melt and to study their occurrence in ski areas. Laboratory snow melt experiments and model-based fate simulations suggested that SFAs will sorb to the snow grain surface and particles in the bulk snow and, after snowmelt, will end up on the underlying (soil) surface. SFAs were detected and quantified for the first time in snow and soil samples taken from a ski area in Sweden. Comparison of concentrations in snow and soil did not give any evidence for long-term accumulation of SFAs in surface soil, but suggested volatilization of shorter chain homologues during snow melt. Such a volatilization could also explain an observed SFA pattern difference between snow and soil samples. Laboratory scale snow melt experiments were also used to investigate the behavior of PFAAs during snowmelt. PFAAs were released with the melt water from the snow pack in pulses. The pulses occurred early, late or with a so far unknown peak elution in the middle of the snowmelt, depending on the hydrophobicity of the PFAAs. These peak releases were further influenced by the age of the snow pack and thus the snow surface area and to a lesser extent by pH and ion concentrations.

Unspecific peroxygenase (EC 1.11.2.1) represents a group of secreted hemethiolate proteins that are capable of catalyzing the selective mono-oxygenation of diverse organic compounds using only H2O2 as a cosubstrate. In this study, the peroxygenase from Agrocybe aegerita (AaeUPO) was found to catalyze the hydroxylation of various linear (e.g n-hexane), branched (e.g. 2,3-dimethylbutane) and cyclic alkanes (e.g. cyclohexane). The size of n-alkane substrates converted by AaeUPO ranged from gaseous propane (C3) to n-hexadecane (C16). They were mono-hydroxylated mainly at the C2 and C3 position, rather than at the terminal carbon, and the corresponding ketones were formed as a result of overoxidation. In addition, a number of alkenes were epoxidized by AaeUPO, including linear terminal (e.g. 1-heptene), branched (2-methyl-2-butene) and cyclic alkenes (e.g. cyclopentene), as well as linear and cyclic dienes (buta-1,3-diene, cyclohexa-1,4-diene). Furthermore, the conversion of terminal alkynes (e.g. 1- octyne) gave the corresponding 1-alkyn-3-ol in low yield. Some of the reactions proceeded with complete regioselectivity and - in the case of linear alkanes, terminal linear alkenes and alkynes - with moderate to high stereoselectivity. The conversion of n-octane gave (R)-3-octanol with 99% enantiomeric excess (ee) and the preponderance of the (S)-enantiomer reached up to 72% ee of the epoxide product for the conversion of 1-heptene. Catalytic efficiencies (kcat/ Km) determined for the hydroxylation and respectively epoxidation of the model compounds cyclohexane and 2-methyl-2-butene were 2.0 × 103 M-1 s-1 and 2.5 × 105 M−1 s−1. The results obtained in the deuterium isotope effect experiment with semideuterated n-hexane and the radical clock experiment with norcarane clearly demonstrated that the hydroxylation of alkanes proceeds via hydrogen abstraction, the formation of a substrate radical and a subsequent oxygen rebound mechanism. Moreover, stopped-flow experiments and substrate kinetics proved the involvement of a porphyrin radical cation species (compound I; AaeUPO-I) as reactive intermediate in the catalytic cycle of AaeUPO, similar to other hemethiolate enzymes (e.g. cytochrome P450 monooxygenases, P450s). / Die Gruppe der Unspezifischen Peroxygenasen (EC 1.11.2.1) umfasst extrazelluläre Häm-Thiolat-Enzyme, die mittels H2O2 als Cosubstrat die selektive Monooxygenierung unterschiedlicher organischer Verbindungen katalysieren. In der vorliegenden Arbeit konnte gezeigt werden, dass die von Agrocybe aegerita sekretierte Peroxygenase (AaeUPO) verschiedene lineare (z. B. n-Hexan), verzweigte (z. B. 2,3-Dimethylbutan) und zyklische Alkane (z. B. Cyclohexan) hydroxyliert. Die Größe der von der AaeUPO umgesetzten Substrate reichte vom gasförmigen Propan (C3) bis hin zu n-Hexadekan (C16). Die Alkane wurden bevorzugt am zweiten und dritten Kohlenstoffatom (C2 und C3) hydroxyliert; eine Hydroxylierung am terminalen Kohlenstoff konnte nur vereinzelt und in geringem Umfang beobachtet werden. Die Überoxidationen der primär gebildeten, sekundären Alkohole führte außerdem zur Entstehung der entsprechenden Ketonderivate. Darüber hinaus wurde eine Vielzahl linearer terminaler (z. B. 1-Hepten), verzweigter (z. B. 2-Methyl-2-Buten) und zyklischer Alkene (z. B. Cyclopenten) sowie linearer und zyklischer Diene (1,3-Butadien, 1,4-Cyclohexadien) durch die AaeUPO epoxidiert. Die Umsetzung terminaler Alkine (z. B. 1-Octin) führte zur Entstehung der jeweiligen 1-Alkin-3-ole. Manche dieser Reaktionen verliefen ausgeprägt regioselektiv und, im Falle der linearen Alkane sowie der linearen terminalen Alkene und Alkine, mit mittlerer bis hoher Stereoselektivität. So ergab beispielsweise die Umsetzung von n-Octan einen Enantiomerenüberschuss größer 99% für (R)-3-Octanol; die Epoxidierung von 1-Hepten lieferte einen Enatiomeerenüberschuss (ee) von bis zu 72% für das (S)-Enantiomer. Die katalytischen Effizienzen, die für die Hydroxylierung bzw. Epoxidierung der Modellverbindungen Cyclohexan und 2-Methyl-2-Buten ermittelt wurden, betragen 2.0 × 103 M-1 s-1 und 2.5 × 105 M−1 s−1. Der ausgeprägte Deuterium-Isotopen-Effekt, der im Zuge der Umsetzung von semideuteriertem n-Hexan beobachtet wurde sowie die Ergebnisse des Radical-Clock-Experiments mit Norcarane als Substrat bestätigten, dass die Hydroxylierung von Alkanen über Wasserstoffabstraktion, die Bildung eines Substratradikals und anschließende direkte Sauerstoffrückbindung verläuft. Die Stopped-Flow-Experimente belegen zudem das Auftreten eines Porphyrin-Kationradikal-Intermediates (Compound I; AaeUPO-I) im katalytischen Zyklus der AaeUPO (vergleichbar mit dem reaktiven Intermediat der P450-Monooxygenasen).

La gran eficiència, selectivitat i les condicions suaus exhibides per les reaccions que tenen lloc al centre actiu de les metal·looxigenases són la font d'inspiració per la present dissertació. Amb l'objectiu de dissenyar catalitzadors d'oxidació eficients hem fet ús de dues estratègies: la primera consisteix en el disseny de complexos amb baix pes molecular inspirats en aspectes estructurals de la primera esfera de coordinació del centre metàl·lic d'enzims de ferro i de manganès. Aquests complexos s'han estudiat com a catalitzadors en l'oxidació selectiva d'alcans i d'alquens fent servir oxidants "verds" com ara l'H2O2. La segona estratègia està basada en l'ús de la química supramolecular per tal de desenvolupar estructures moleculars auto-acoblades amb la forma i les propietats químiques desitjades. Concretament, la construcció de nanocontenidors amb un catalitzador d'oxidació incrustat a la seva estructura ens permetria dur a terme reaccions més selectives, tal com passa en les reaccions catalitzades per enzims. / The high efficiency, selectivity and mild conditions exhibited by the reactions that take place in the active site of metallooxygenases are the source of inspiration of the present dissertation. With the aim of designing efficient oxidation catalysts, we make use of two different strategies: the first one is the design of low molecular weight complexes inspired by structural aspects of the first coordination sphere of the metal active site of non-heme iron and manganese enzymes. These complexes are studied as catalysts for the selective oxidation of alkanes and alkenes using green oxidants such as H2O2. The second strategy is based on the use of supramolecular chemistry to develop self-assembled molecular structures with desired shape and chemical properties. Particularly, the construction of cavity-containing 3D nanovessels with an oxidation catalyst embedded in their structures would allow us to perform more selective reactions, analogously to the reactions catalyzed by enzymes.

The Gaoping (GP) river which has the largest drainage basin and is the second longest river in Taiwan. Highly erodible sedimentary and metamorphic rocks in the drainage basin, coupled with a steep landscape, humid climate, frequent typhoons and earthquakes, provide favorable conditions for bedrock weathering and soil erosion in the GP drainage basin. Its exceptionally high sediment yield and tidal-dominated dispersal system presents a unique case for comparative study. In this study, we collected sediment and soil samples not only from estuary region but also traced up to upper stream areas of the GP drainage. We analyze the content of n-alkanes in the sediments and soils of GP river-sea system, and utilize compositional patterns to discuss the sources and process of transmission of terrigenous organic matter of GP river-sea system. Analyzed results show that the average carbon chain distribution shows same pattern for rocks, riverine and seafloor sediments but is different with soil samples. Hierarchical cluster analysis helps us to distinguish differently compositional patterns of n-alkanes. And the riverine, seafloor and rock samples have high similarity, except for soils. The spatial distribution of the carbon preference index (CPI) and temporal distribution of CPI in cores, show that values are all close to ~1, but not for soils (>2). This result indicates that for the past 150 years, lower CPI values not merely from petroleum pollutions, but also due to thermal mature terrestrial organic matter eroded from bedrock caused by tectonic and climatic events, such as typhoons and earthquakes.