The study of adsorption of n-alkanes in zeolite pores represents both a fundamental problem in molecular thermodynamics and also a problem with substantial industrial importance. Until mid 19th century, adsorption was mainly used for purification processes such as removal of H2S and mercaptans from natural gas and organic matter from water. However, with the emergence of molecular sieves, especially zeolites, adsorption processes have become an attractive alter- native to distillation in large scale separation of mixtures that have low relative volatility into streams each enriched in one of the components. The pore di- ameters of molecular sieves are of the order of molecular diameters and hence selective adsorption can be achieved by both a difference in adsorbate-adsorbent interactions of various species and obstruction by the pore walls to some of the species in the mixture. The existing adsorption theories such as Henry’s law, Langmuir adsorption model and BET isotherm are incapable of predicting the adsorption isotherms of n-alkanes in zeolite pores. The reason is that in microporous adsorbents, the sorbate molecular mechanisms are influenced by geometrical constraints also. This limitation in the use of theory can be overcome by developing a molecular model and using computers to mimic the real system. This nature of simulation is called molecular simulations. With the development of advanced algorithms, improved force-field parameters and very high computational power of present day computers, molecular simulations have become an important tool in studying adsorption on micro-porous materials. Adsorption experiments of mixtures of long chain alkanes into silicalite under liquid phase conditions show selectivity inversion and azeotrope formation. These effects are due to the subtle interplay between the size of the adsorbed molecules and pore topology of the adsorbent. The underlying molecular mechanisms responsible for selective uptake of one of the components cannot be obtained from experiments but can be realized through simulations. Therefore, in this study, the selective uptake of lighter component during liquid phase adsorption of C14/C15 and C15/C16 n-alkane binary mixtures in the zeolite silicalite is understood through configurational bias grand canonical Monte Carlo (CB- GCMC) molecular simulation technique and a course-grained siting analysis. The simulations are conducted under conditions of low and high loading. The siting pattern of the adsorbates inside the zeolite pores is used to explain the selectivity as seen in experiments.

La perception des emballages alimentaires est passée d’utile à source majeure de contaminants dans les aliments et menace pour l’environnement. La substitution du verre par des con-tenants en plastiques recyclés ou biosourcés réduit l’impact environnemental des boissons embouteillées. La thèse a développé de nouveaux outils de simulation 3D et d’optimisation pour accélérer le prototypage des emballages éco-efficaces pour les boissons alcoolisées. La durée de conservation des boissons, la sécurité sanitaire des matériaux plastiques recyclés, les contraintes mécaniques, et la quantité de déchets sont considérées comme un seul problème d'optimisation multicritères. Les nouvelles bouteilles sont générées virtuellement et itérativement en trois étapes comprenant : i) une [E]valuation multiéchelle des transferts de masse couplés ; ii) une étape de [D]écision validant les contraintes techniques (forme, capacité, poids) et réglementaires (durée de conservation, migrations); iii) une étape globale de ré[S]olution recherchant des solutions de Pareto acceptables. La capacité de prédire la durée de vie des liqueurs dans des conditions réelles a été testée avec succès sur environ 500 miniatures en PET (polyéthylène téréphtalate) sur plusieurs mois. L’ensemble de l’approche a été conçu pour gérer tout transfert de matière couplé (perméation, sorption, migration). La sorption mutuelle est prise en compte via une formulation polynaire de Flory-Huggins. Une formulation gros grain de la théorie des volumes libres de Vrentas et Duda a été développée pour prédire les propriétés de diffusion dans les polymères vitreux de l’eau et des solutés organiques dans des polymères arbitraires (polyesters, polyamides, polyvinyles, polyoléfines). 409 diffusivités issues de la littérature ou mesurées ont été utilisée pour validation. La contribution de la relaxation du PET vitreux a été analysée par sorption différentielle (binaire et ternaire) de 25 à 50 °C. Une partie du code source sera partagé afin d'encourager l'intégration de davantage de paramètres affectant la durée de conservation des boissons et des produits alimentaires (cinétique d'oxydation, piégeage d'arômes). / The view of plastic food packaging turned from useful to a major source of contaminants in food and an environmental threat. Substituting glass by recycled or biosourced plastic containers reduces environmental impacts for bottled beverages. The thesis developed a 3D computational and optimization framework to accelerate the prototyping of eco-efficient packaging for alcoholic beverages. Shelf-life, food safety, mechanical constraints, and packaging wastes are considered into a single multicriteria optimization problem. New bottles are virtually generated within an iterative three steps process involving: i) a multiresolution [E]valuation of coupled mass transfer; ii) a [D]ecision step validating technical (shape, capacity, weight) and regulatory (shelf-life, migrations) constraints; iii) a global [Solving] step seeking acceptable Pareto solutions. The capacity to predict shelf-life of liquors in real conditions was tested successfully on ca. 500 hundred bottle min iatures in PET (polyethylene terephthalate) over several months. The entire approach has been designed to manage any coupled mass transfer (permeation, sorption, migration). Mutual sorption is considered via polynary Flory-Huggins formulation. A blob formulation of the free-volume theory of Vrentas and Duda was developed to predict the diffusion properties in glassy polymers of water and organic solutes in arbitrary polymers (polyesters, polyamides, polyvinyls, polyolefins). The validation set included 433 experimental diffusivities from literature and measured in this work. The contribution of polymer relaxation in glassy PET was analyzed in binary and ternary differential sorption using a cosorption microbalance from 25 to 50°C. Part of the framework will be released as an open-source project to encourage the integration of more factors affecting the shelf-life of beverages and food products (oxidation kinetics, aroma scalping).

This thesis deals with several aspects of the structure and dynamics of water molecules confined in nanoscopic pores. Water molecules confined in hydrophobic nanocavities exhibit unusual structural and dynamic properties. Confining walls of single-wall carbon nanotubes (SWCNTs) promote strong inter-water hydrogen bonding which in turn leads to several novel structural, dynamic and thermodynamic features not found in bulk water. Confined water molecules form ordered hydrogen-bonded networks, exhibit exceptionally high flow rates as compared to conventional flow in pipes, allow fast proton conduction and exhibit various other anomalous properties. Proteins are known to exploit some of the properties of confined water to perform certain physiological functions. Various properties of confined water can also be exploited in the design of nanofludic devices such as those for desalination and flow sensors. In addition, water molecules confined in SWCNTs and near graphene sheets serve as model systems to study various effects of confinement on the properties of liquids. In this thesis, we present the results of detailed molecular dynamics simulation studies of confined water molecules. In chapter 1, we summarize the findings of existing simulations and experimental studies of bulk and confined water molecules. We also highlight the significance of studying the structure and dynamics of confined water molecules in biological and biotechnological applications. Chapter 2 provides a brief ac-count of the methods and techniques used to perform the simulations described in subsequent chapters of the thesis. We also present a brief overview of the methods used to extract physical properties of water molecules from simulation data, with emphasis on the Two Phase Thermodynamics (2PT) method which we have used to compute the entropy of confined and bulk water molecules. In chapter 3, we discuss the thermodynamics of water entry in SWCNTs of various diameters. Experiments and computer simulations demonstrate that water spontaneously fills the interior of a carbon nanotube. Given the hydrophobic nature of the interior of carbon nanotubes and the strong confinement produced by narrow nanotubes, the spontaneous entry of water molecules in the pores of such nanotubes is surprising. To gain a quantitative thermodynamic understanding of this phenomenon, we use the recently developed Two Phase Thermodynamics (2PT) method to compute translational and rotational entropies of water molecules confined in SWCNTs and show that the increase in energy of a water molecule inside the nanotube is compensated by the gain in its rotational entropy. The confined water is in equilibrium with the bulk water and the Helmholtz free energy per water molecule of confined water is the same as that in the bulk within the accuracy of the simulation results. A comparison of translational and rotational spectra of water molecules confined in carbon nanotubes with those of bulk water shows significant shifts in the positions of spectral peaks that are directly related to the tube radius. These peaks are experimentally accessible and can be used to characterize water dynamics from spectroscopy experiments. We have also computed the free-energy transfer when a bulk water molecule enters a SWCNT for various temperatures and carbon-water interactions. We show that for reduced carbon-oxygen interaction, the free energy transfer is unfavourable and the SWCNT remains unoccupied for significant periods of time. As the temperature is increased, the free energy of confined water becomes unfavourable and reduced occupancy of water is observed. Bulk water exhibits many anomalous properties. No single water model is able to reproduce all properties of bulk water. Different empirical water models have been developed to reproduce different properties of water. In chapter 4, a comparative study of the structure, dynamics and thermodynamic proper-ties of water molecules confined in narrow SWCNTs, obtained from simulations using several water models including polarizable ones, is presented. We show that the inclusion of polarizability quantitatively affects the nature of hydro-gen bonding which governs different properties of water molecules. The SPC/E water model is shown to reproduce results in close agreement with those from polarizable water models with much less computational cost. In chapter 5, we report results obtained from simulations of the properties of water confined in the space between two planar surfaces. We consider three cases: two graphene surfaces, two Boron Nitride (BN) surfaces and one graphene and one BN surface. This is the first detailed study of the behaviour of water near extended BN surfaces. We show that the hydrophilic nature of the BN surface leads to several interesting effects on the dynamics of water molecules near it. We have observed a change in the activation energy, extracted from the temperature dependence of the translational and rotational dynamics, near 280K. This change in activation energy coincides with a change in the structure of the confined sheet of water, indicated by a sudden change in energy. We have also found signatures of glassy dynamics at low temperatures for all three cases, the glassy effects being the strongest for water molecules confined between two BN sheets. These results are similar to those of earlier studies in which novel phases of water have been found for water molecules confined between other surfaces at high pressure. In chapter 6, we have described our observation of a novel phenomenon exhibited by water molecules flowing through a SWCNT under a pressure gradient. We have shown that the flow induces changes in the orientation of the water molecules flowing through the nanotube. In particular, the dipole moments of the water molecules inside the nanotube get aligned along the axis of the nanotube under the effect of the flow. With increasing flow velocities, the net dipole moment first increases and eventually saturates to a constant value. This behaviour is similar to the Langevin theory of paramagnetism with the flow velocity acting as an effective aligning field. Preferential entry of water molecules with dipole moments pointing inward is shown to be the main cause of this effect. This observation provides a way to control the dipolar alignment of water molecules inside nano-channels, with possible applications in nanofluidic devices. Chapter 7 contains a summary of our main results and a few concluding re-marks.