Nanofluidic devices have been of great interest due to their applications in variety of fields, including energy conversion and storage, water desalination, biological and chemical separations, and lab-on-a-chip devices. Although these applications cross the boundaries of many different disciplines, they all share the demand for understanding transport in nanoscale conduits. In this thesis, different elusive aspects of molecule and particle transport through nanofluidic conduits are investigated, including liquid and ion transport in nanochannels, diffusion- and reaction-governed enzyme transport in nanofluidic channels, and finally translocation of nanobeads through nanopores. Liquid or solvent transport through nanoconfinements is an essential yet barely characterized component of any nanofluidic systems. In the first chapter, water transport through single hydrophilic nanochannels with heights down to 7 nm is experimentally investigated using a new measurement technique. This technique has been developed based on the capillary flow and a novel hybrid nanochannel design and is capable of characterizing flow in both single nanoconduits as well as nanoporous media. The presence of a 0.7 nm thick hydration layer on hydrophilic surfaces and its effect on increasing the hydraulic resistance of the nanochannels is verified. Next, ion transport in a new class of nanofluidic rectifiers is theoretically and experimentally investigated. These so called nanofluidic diodes are nanochannels with asymmetric geometries which preferentially allow ion transport in one direction. A nondimensional number as a function of electrolyte concentration, nanochannel dimensions, and surface charge is derived that summarizes the rectification behavior of this system. In the fourth chapter, diffusion- and reaction-governed enzyme transport in nanofluidic channels is studied and the theoretical background necessary for understanding enzymatic activity in nanofluidic channels is presented. A simple analytical expression that describes different reaction kinetics is derived and confirmed against available experimental data of reaction of Trypsin with Poly-L-lysine. Finally, in the last chapter translocation of nanobeads through synthetic nanopores is experimentally investigated using resistive pulse sensing. The emphasis is placed on elucidating the effect of nanobead size on the translocation current and time. The key goals pursued in this study are multiplex detection of different nanobead sizes in a mixture of nanobeads as well as determining the concentration of each component. This problem other than its fundamental significance paves the way for developing new biosensing mechanisms for detection of biomolecules. This thesis further explores the molecule and particle transport in nanoscale conduits and serves for better characterization and development of nanofluidic devices for various applications.

In recent years the application of single-molecule techniques to probe biomolecules and intermolecular interactions at single-molecule resolution has expanded rapidly. Here, I investigate a series of peptides and proteins in an attempt to gain a better understanding of nanopore sensing as a single-molecule technique. The analysis of retro, inversed, and retro-inversed isomers of glucagon and α-helical Fmoc-D2A10K2 peptide showed that nanopore sensing utilizing a wild-type α-hemolysin pore can distinguish between all four isomers while circular dichroism can only distinguish between chiral isomers, but not between directional isomers. The investigation of a series of proteins of different chemical and physical properties revealed important information about nanopore analysis of proteins. Contrary to some reports in the literature, all proteins analysed here induced large blockade events. The frequency of total events and the proportion of large blockade events were significantly reduced in tris(hydroxymethyl)aminomethane or 4-(2-hydroxyethyl)piperazine-1-ethanesulfonic acid buffers and were only restored by the addition of ethylenediaminetetraacetic acid or the use of phosphate buffer, both of which can sequester metal ions. Furthermore, the results obtained with the proteins in the presence of ligands demonstrated that transient or partial unfolding of proteins can be detected by nanopore analysis confirming the usefulness of this technique for conformational studies or for protein/ligand interactions. Interestingly, while the blockade current histograms were different for each protein there was no obvious correlation between the properties of the proteins and the blockade current histograms. In an attempt to identify whether the large blockade events were translocation or intercalation, both an indirect and a direct approach were taken. The indirect approach which relies on the effect of voltage on the interaction of the molecule with the pore provided no conclusive answer to the question of protein translocation through the α-hemolysin pore. In contrast, the direct approach in which ribonuclease A is added to the cis side of the pore and then the trans side is tested for enzyme activity showed that ribonuclease A doesn't translocate through the α-hemolysin pore.

Le transport d’ions et de molécules à l’intérieur de canaux nanométriques diffère du transport à l’échelle micro- ou macroscopique du fait de rapports surface/volume bien plus élevés conduisant à de nouveaux phénomènes de transport. Les nanotubes de carbone avec leurs propriétés uniques apparaissent comme des canaux exceptionnellement intéressants pour mieux comprendre le transport ionique et fluidique à l’échelle nanométrique et pour d’éventuelles applications nanofluidiques. Ce travail est dédié à l’étude et la compréhension des mécanismes de transport des ions en phase aqueuse à l’intérieur de nanotubes de carbone, un sujet particulièrement important pour le développement d’applications dans le domaine du séquençage de l’ADN ou de l’analyse biochimique de petites molécules.Durant ce travail, un protocole a été développé pour la fabrication de dispositifs microfluidiques intégrant des nanotubes de carbone et permettant des mesures à la fois électriques et optiques. Les propriétés de transport à l’intérieur de nanotubes de carbone mono-feuillets ont été étudiées en combinant mesures de courant ionique sous application d’un champ électrique, spectroscopie Raman et modélisation théorique. Les résultats obtenus par cette étude démontrent la forte influence de l’environnement du nanotube sur la densité et la distribution des charges de surface et donc sur les propriétés de transport à l’intérieur de ces nano-canaux dont les parois sont d’épaisseur atomique. Les ordres de grandeur des courants ioniques mesurés expérimentalement sont en bon accord avec les modèles standards de transport ionique dans un nanocanal en considérant des densités de charge de surface et des longueurs de glissement physiquement raisonnables. De manière importante, ce travail a permis de mettre en évidence un transport ionique activé par champ électrique à l’intérieur de nanotubes de carbone, qui peut être expliqué en considérant un modèle de transport plus élaboré intégrant une ou plusieurs barrières d’énergie le long du nanotube. Les résultats de la caractérisation Raman suggèrent que ces barrières d’énergie résultent d’un dopage hétérogène le long du nanotube induit par la matrice polymère. / Ionic and molecular transport inside nanometer scale geometries is distinct from micro- and macroscale transport due to the large surface-to-volume ratios which lead to unique transport phenomena. Carbon nanotubes with their peerless properties appear as exceptional channels for understanding fluidic and ionic transport at the nanoscale and for developing nanofluidics-based applications. This work is devoted at studying and understanding the transport mechanisms of ions in aqueous phase through carbon nanotubes, which is especially important for various applications such as DNA sequencing or biochemical analysis of small molecules.During this work, a protocol was developed for the fabrication of carbon nanotubes-based microfluidic devices which are suitable for both electrical and optical measurements. The transport properties through single-walled carbon nanotubes were investigated by combining ion current measurements under an applied voltage, Raman spectroscopy and theoretical modelling. The results obtained from this study highlight the strong influence of the nanotube environment on their surface charge density and distribution and hence on the ionic transport properties through these nanochannels having walls of atomic thickness. The orders of magnitude of the ionic currents experimentally measured are in good agreement with the standard models of ion transport through nanochannels when considering physically reasonable values of surface charge densities and slip lengths. Importantly, this work allowed us to evidence a novel voltage-activated transport of ions through carbon nanotubes which can be accounted for by considering a more elaborate transport model including the presence of one or more energy barriers along the nanotube. Raman characterization results support that these energy barriers result from a heterogeneous doping along the nanotubes induced by the polymer matrix.