Endocytosis is one of the most fundamental mechanisms by which the cell communicates with its surrounding. Specific signals are transduced through the cell membrane by a complex interplay between proteins and lipids. Clathrin depended endocytosis is one of important signalling pathways which leads to budding of the plasmalemma and a formation of endosomes. The FCHo2 is an essential protein at the initial stage of the this process. In is a membrane binding protein containing BAR (BIN, Amphiphysin, Rvs) domain which is responsible for a membrane binding. Although numerous valuable work on BAR proteins was published recently, the mechanistic description of a BAR domain functionality is missing. In present work we applied in vitro systems in order to gain knowledge about molecular basis of the activity of the FCHo2 BAR domain. In our studies we used supported lipid bilayers (SLBs) and lipid monolayers as s model membrane system. The experiments were carried out with a minimal number of components including the purified FCHo2 BAR domain. Using SLBs we showed that the BAR domain can bind to entirely flat bilayers. We also demonstrated that these interactions depend on the negatively charged lipid species incorporated in the membrane. We designed an assay which allows to quantify the membrane tubulation. We found out that the interaction of the FCHo2 BAR domain with the lipid membrane is concentration dependent. We showed that an area of the bilayer deformed by the protein depends on the amount of the used BAR domain. In order to study the relation between the mobility of lipids and the activity of FCHo2 BAR domain we designed a small-volume monolayer trough. The design of this micro-chamber allows for the implementation of the light microscopy. We demonstrated that the measured lipid diffusion in the monolayer by our new approach is in agreement with literature data. We carried out fluorescence correlation spectroscopy (FCS) experiments at different density of lipids at the water-air interface.We showed that the FCHo2 BAR domain binding affinity is proportional to the mean molecular area (MMA). We additionally demonstrated that the increased protein binding is correlated with the higher lipid mobility in the monolayer. Additionally, by curing out high-speed atomic force microscopy (hsAFM) we acquired the structural information about FCHo2 BAR domains orientation at the membrane with a high spatio-temporal resolution. Obtained data indicate the BAR domains interact witheach other by many different contact sites what results in a variety of protein orientations in a protein assemble.

This article has been published online on 21st May 2014, in Journal of Vacuum Science & Technology A: Vac (Vol.32, Issue 4): http://scitation.aip.org/content/avs/journal/jvsta/32/4/10.1116/1.4878815?aemail=author DOI: 10.1116/1.4878815 This article may be accessed via the issue's table of contents at this link: http://scitation.aip.org/content/avs/journal/jvsta/32/4?aemail=author The surface chemistry of the bis(tri-n-butylphosphane) copper(I) acetylacetonate, [(nBu3P)2Cu(acac)], and the thermal atomic layer deposition (ALD) of Cu2O using this Cu precursor as reactant and wet oxygen as co-reactant on SiO2 substrates are studied by in-situ X-ray photoelectron spectroscopy (XPS). The Cu precursor was evaporated and exposed to the substrates kept at temperatures between 22 °C and 300 °C. The measured phosphorus and carbon concentration on the substrates indicated that most of the [nBu3P] ligands were released either in the gas phase or during adsorption. No disproportionation was observed for the Cu precursor in the temperature range between 22 °C and 145 °C. However, disproportionation of the Cu precursor was observed at 200 °C, since C/Cu concentration ratio decreased and substantial amounts of metallic Cu were present on the substrate. The amount of metallic Cu increased, when the substrate was kept at 300 °C, indicating stronger disproportionation of the Cu precursor. Hence, the upper limit for the ALD of Cu2O from this precursor lies in the temperature range between 145 °C and 200 °C, as the precursor must not alter its chemical and physical state after chemisorption on the substrate. 500 ALD cycles with the probed Cu precursor and wet O2 as co reactant were carried out on SiO2 at 145 °C. After ALD, in situ XPS analysis confirmed the presence of Cu2O on the substrate. Ex-situ spectroscopic ellipsometry indicated an average film thickness of 2.5 nm of Cu2O deposited with a growth per cycle of 0.05 Å/cycle. Scanning electron microscopy (SEM) and atomic force microscopy (AFM) investigations depicted a homogeneous, fine, and granular morphology of the Cu2O ALD film on SiO2. AFM investigations suggest that the deposited Cu2O film is continuous on the SiO2 substrate.

This thesis mainly deals with the development of photochemical approaches to immobilize carbohydrates on surfaces for glycobiological studies. These approaches have been incorporated into a number of state-of-the-art nanobio-platforms, including carbohydrate microarrays, surface plasmon resonance (SPR), quartz crystal microbalance (QCM), atomic force microscopy (AFM), and glyconanomaterials. All the surfaces have displayed good binding capabilities and selectivities after functionalization with carbohydrates, and a range of important data have been obtained concerning surface characteristics and carbohydrate-protein interactions, based on the platforms established. Besides, a variety of non-carbohydrate and carbohydrate-based molecules have been synthesized, during which process the mutarotation of 1-glycosyl thiols and the stereocontrol in 1-S-glycosylation reactions have been thoroughly studied. / QC 20111004

Η κρυστάλλωση και η διάλυση αλάτων αποτελούν σημαντικές διεργασίες οι οποίες συνεισφέρουν στην φθορά των μνημείων της πολιτιστικής μας κληρονομιάς, τα οποία έχουν κατά κύριο λόγο κατασκευασθεί από δομικά υλικά όπως ο ασβεστόλιθoς και το μάρμαρο. Η κρυστάλλωση ευδιάλυτων αλάτων (π.χ. θειϊκό νάτριο, θειϊκό μαγνήσιο, χλωριούχο νάτριο) σε πορώδη υλικά έχει καταστροφικές επιπτώσεις τόσο στις ιστορικές όσο και στις σύγχρονες κατασκευές από σκυρόδεμα. Το πιο κατεστρεπτικό άλας για την ακεραιότητα των κατασκευών έχει αποδειχθεί, ότι είναι το θειίκό νάτριο. Η κατανόηση του μηχανισμού κρυστάλλωσης του άλατος αυτού είναι απαραίτητη προϋπόθεση για τον περιορισμό ή τον έλεγχο του σχηματισμού του σε ατμοσφαιρικές συνθήκες. Για τον σκοπό αυτό, έγινε συστηματική μελέτη της κρυσταλλικής ανάπτυξης του δεκαένυδρου θειϊκού νατρίου (Μιραμπιλίτης) σε υπέρκορα διαλύματά του. Αναπτύχθηκε μεθοδολογία βασισμένη στον εξώθερμο χαρακτήρα της κρυσταλλικής ανάπτυξης του μιραμπιλίτη. Η πειραματική μελέτη περιορίσθηκε στην ετερογενή κρυσταλλική ανάπτυξη τόσο σε φύτρα Μιραμπιλίτη, όσο και σε ξένα υποστρώματα. Τα υποστρώματα τα οποία μελετήθηκαν περιλάμβαναν ασβεστόλιθο από την Γρανάδα (ασβεστιτικός κυρίως) καθώς και ψαμμόλιθο (Πράγα, Τσεχίας) πυριτικής κατά κύριο λόγο σύστασης. Η μελέτη της κινητικής της κρυσταλλικής ανάπτυξης του Μιραμπιλίτη, έδειξε ότι το καθορίζον την ταχύτητα στάδιο είναι η διάχυση των δομικών μονάδων στην επιφάνεια των κρυσταλλικών φύτρων του Μιραμπιλίτη. Το συμπέρασμα αυτό οδήγησε στην δοκιμή οργανοφωσφορικών ενώσεων, ως προς την επίδρασή τους στην κινητική της κρυσταλλικής ανάπτυξης του μιραμπιλίτη. Οι ενώσεις αυτές ιονίζονται και αλληλεπιδρούν αποτελεσματικά με την κρυσταλλική επιφάνεια δηλητηριάζοντας τα ενεργά κέντρα κρυστάλλωσης. Ο βαθμός ιονισμού βρέθηκε ότι είναι καθοριστικός για την ανασταλτική τους δράση. Πειράματα ταχείας καταβύθισης ευδιάλυτων αλάτων ηλεκτρολυτών σε ασβεστολιθικά και ψαμμιτικά δοκίμια τα οποία έγιναν τόσο με εμβάπτιση, όσο και με έκθεση σε θάλαμο αλατονέφωσης επιβεβαίωσαν τα αποτελέσματα της μελέτης της κινητικής της κρυστάλλωσης του Μιραμπιλίτη και της σχετικής αποτελεσματικότητος των αναστολέων που χρησιμοποιήθηκαν. Πλην της κρυσταλλικής ανάπτυξης ευδιάλυτων αλάτων, σημαντική συνεισφορά στην αποδόμηση των δομικών υλικών παίζει και η διάλυση του ανθρακικού ασβεστίου, το οποίο και αποτελεί τη βασική συστατική τους ένωση. Για τη μελέτη της διεργασίας της κρυσταλλικής ανάπτυξης και διάλυσης του ανθρακικού ασβεστίου τόσο απουσία όσο και παρουσία ανιόντων όπως τα θειϊκά και τα ανιόντα φθορίου χρησιμοποιήθηκε η μικροσκοπία ατομικής δύναμης,η οποία έδωσε την δυνατότητα in situ μέτρησης του ρυθμού κρυσταλλικής ανάπτυξης και διάλυσης σε συνθήκες σταθερού κορεσμού. Η παρουσία θειϊκών ανιόντων έδειξε ότι η κρυσταλλική ανάπτυξη του ανθρακικού ασβεστίου αναστέλλεται ενώ η παρουσία φθορίου επιταχύνει τη διάλυση. Τα αποτελέσματα των μετρήσεων της κινητικής των διεργασιών έδειξαν ότι οι επιμολύνσεις στα υπέρκορα διαλύματα δρούν στην κινητική λόγω προσρόφησης και δέσμευσης των ενεργών κέντρων κρυσταλλικής ανάπτυξης διάλυσης. / The research made in the present PhD Thesis entitled “Crystallization and dissolution study of electrolyte salts”. The objective of the dissertation concerned both crystallization and dissolution processes of soluble sodium sulfate and insoluble calcium carbonate electrolyte salts approached by different experimental aspects but directly connected to environmental and scientific issues. Salt crystallization is an important cause for the weathering and damage of historical and cultural heritage artifacts and ornamental stones. Soluble salts (i.e. sodium sulfate, magnesium sulfate, sodium chloride) have also a damaging and fateful impact on civil engineering structures of roads and building foundations. Most damaging salt for such built frameworks is proven to be sodium sulfate salt. Only when we have a better understanding of sodium sulfate crystallization in an unconstrained fluid medium can we progress to a study of sodium sulfate crystallization in porous building materials. At the beginning of this study batch crystallization experiments of sodium sulfate salt were conducted. Additionally potential organic inhibitors (i.e. organophosphonate, polyacrylates) were tested in the same batch experimental system. Popular and applicable limestone building material is of uniform composition consisting mainly calcium (calcitic material). Granada’s calcarenite has been selected as one of the target material to study. This natural stone is representative of the building material utilized in construction material monuments and susceptible to salt crystallization. In situ AFM experiments of both calcite crystal growth and dissolution were performed in the presence of different electrolyte solutions (i.e. sodium sulfate and sodium fluoride). Nanoscale phenomena during the growth of solid solutions on calcite surfaces were performed in the presence of sodium sulfate electrolyte solutions. Further molecular-scale surface processes during both growth and dissolution of calcite in the presence of sodium fluoride electrolyte solutions were carried out. In all cases significant kinetic data and reaction mechanisms were extracted. Accelerated degradation of Granada’s limestone and Czech sandstone experiments were executed. Tested materials were exposed and impregnated in concentrated solutions of soluble salts (i.e. sodium sulfate, magnesium sulfate and sodium chloride). Immersed limestone type material showed susceptibility to sodium sulfate and sandstone type material to sodium chloride salt solution. Different pre-treatments of limestone specimens with organophosphonate compounds resulted in limiting material damage from sodium sulfate influence. The use of such organic compounds may direct towards a potential implication of conserving building frameworks. Finally suspended limestone rods were subjected to sodium sulfate spray chamber. Pre-treatment of limestone rods with organophosphonate compounds were completed. Again applications of organophosphonate compounds to exposure of limestone material in salt spray chamber may work towards a case of preventing porous material from salt damage and protect building stones.

Οι τεχνικές Μικροσκοπίας Ατομικής Δύναμης που χρησιμοποιούν ακίδες σάρωσης έχουν την ικανότητα όχι μόνο να παρατηρούν επιφάνειες σε ατομικό επίπεδο αλλά και να τις τροποποιούν σε πολύ μικρή κλίμακα. Αυτό αποτελεί και το κίνητρο για τη χρησιμοποίηση των τεχνικών αυτών στη δημιουργία συσκευών αποθήκευσης με πολύ μεγαλύτερη πυκνότητα από τις συμβατικές συσκευές. Σε διάφορα ερευνητικά προγράμματα αποθήκευσης δεδομένων τεχνολογίας MEMS/NEMS με ακίδες, η σχετική τροχιά κίνησης της ακίδας ως προς το αποθηκευτικό μέσο ακολουθεί ένα μοτίβο raster. Παρά την απλή υλοποίησή της, η προαναφερθείσα κίνηση σάρωσης έχει σημαντικά μειονεκτήματα. Στο πλαίσιο της εργασίας αυτής προτείνεται μια εναλλακτική τοπολογία σπειροειδούς κίνησης. Η προτεινόμενη μέθοδος μπορεί να εφαρμοσθεί σε οποιοδήποτε σύστημα που βασίζεται σε διαδικασίες σάρωσης, όπως συστήματα αποθήκευσης και AFM συστήματα απεικόνισης. Στην εργασία αυτή μελετάται η περίπτωση των συσκευών αποθήκευσης με ακίδες, όπου η τροχιά που διαγράφει η ακίδα σε σχέση με το επίπεδο x/y που ορίζεται από το μέσο αποθήκευσης, είναι η σπειροειδής καμπύλη του Αρχιμήδη. Η χρήση μιας τέτοιας σπειροειδούς τροχιάς οδηγεί σε σήμα θέσης αναφοράς με εξαιρετικά στενό συχνοτικό περιεχόμενο, το οποίο ολισθαίνει πολύ αργά στον χρόνο. Για πειραματική επιβεβαίωση, ο προτεινόμενος τρόπος σπειροειδούς κίνησης εφαρμόστηκε σε σύστημα αποθήκευσης πληροφορίας με ακίδες με δυνατότητες θερμομηχανικής εγγραφής και ανάγνωσης δεδομένων σε φιλμ πολυμερούς. Επιπλέον, μελετήθηκε η αξιοποίηση των ιδιοτήτων του νέου τύπου κίνησης από αρχιτεκτονικές ελέγχου ειδικά σχεδιασμένες και βελτιστοποιημένες για τη συγκεκριμένη οικογένεια τροχιών αναφοράς, με στόχο την επίτευξη πολύ υψηλότερων συχνοτήτων σάρωσης για την ίδια ακρίβεια θέσης. Προς επιβεβαίωση των θεωρητικών αναλύσεων, παρουσιάζονται αποτελέσματα εξομοιώσεων καθώς και πειραματικά αποτελέσματα από πειραματική διάταξη. Στο πλαίσιο της διατριβής πραγματοποιήθηκε και η μοντελοποίηση του καναλιού θερμομηχανικής αποθήκευσης με ακίδες σε μεμβράνες πολυμερούς υλικού. Ενώ η θεωρητική μορφή των θερμομηχανικά εγγεγραμμένων κοιλωμάτων είναι κωνική, στην πράξη η μορφή του απέχει πολύ από το θεωρητικό μοντέλο. Για τον λόγο αυτό, αναπτύχθηκε μοντέλο του συμβόλου ως προς την ταχύτητα σάρωσης κατά τη διαδικασία εγγραφής, με βάση πειραματικά δεδομένα. Στο πλαίσιο της διατριβής μελετήθηκε επίσης η δυνατότητα ανάπτυξης συνδυασμένων αρχιτεκτονικών ελέγχου παρακολούθησης και ανάκτησης χρονισμού συμβόλου, όπου η πληροφορία για τη στιγμιαία ταχύτητα του σαρωτή παρέχεται από το μέσο αποθήκευσης μέσω των κυκλωμάτων συγχρονισμού. Τα αποτελέσματα των εξομοιώσεων επιβεβαιώνουν την δυνατότητα αυτή, και επιπλέον δείχνουν ότι υπό προϋποθέσεις η ακρίβεια παρακολούθησης του συστήματος βελτιώνεται. Τέλος, διερευνήθηκε η απόδοση των προτεινόμενων μεθόδων στην περίπτωση φορητών συσκευών, τα οποία υπόκεινται σε εξωτερικές διαταραχές. Στο πλαίσιο της διερεύνησης αυτής, συλλέχθηκαν πειραματικά αποτελέσματα και αναλύθηκαν μετρήσεις τυπικών εξωτερικών διαταραχών. / The AFM techniques using scanning probes have the capacity not only to observe surfaces in atomic level but also to modify them at a very small scale. This feature motivates the use of these techniques to create storage devices capable of storing data in a much higher density than conventional devices. In various MEMS/NEMS-based data storage technology research projects with probes, the relative trajectory follows a raster pattern or similar. Despite its simple implementation, the aforementioned scanning pattern has significant disadvantages. In this work, an alternative spiral motion topology is proposed. The proposed method can be applied to any system based on scanning probes, such as storage systems and AFM imaging systems. In this work, the case of storage devices with probes is studied, in which the trajectory of the probe with respect to the x/y plane of the storage medium, is the spiral curve of Archimedes. The use of such a spiral trajectory leads to a reference position signal with extremely narrowband frequency content, which slides very slowly in time. For experimental verification, the proposed method of spiral motion was applied on a single probe experimental setup, with read and writes data thermomechanical capabilities on very thin polymer films. The aforementioned inherent properties of the proposed approach enable system designs with improved tracking performance and with non-intermittent, high-speed storage capabilities. Thus, the exploitation of these properties by architectures specifically designed and optimized for the particular reference trajectory is studied, in order to achieve much higher scanning frequencies for the same positioning accuracy. To verify the theoretical analysis, simulation results are presented as well as experimental results from the application of the proposed techniques and architectures in experimental AFM systems with a single probe. In this dissertation the modeling of the thermomechanical storage channel with probes in thin polymer films was also carried out. While the theoretical form of thermomechanically engraved indentations is conical, in practice its form is far from this theoretical model. Hence, a symbol model was developed in respect to the scanning speed during the write process, based on experimental data. This model can be used to properly design the equalization circuits depending on the motion speed of operation. Moreover, the possibility of developing combined architectures of tracking control and symbol timing recovery was also investigated, where the information regarding the scanner speed is provided from the storage medium via symbol timing synchronization circuits. The simulation results confirm this approach and, furthermore, show that, under certain conditions, the system’s tracking accuracy is improved. Finally, the performance of the proposed methods in the case of portable storage devices was investigated, where the systems are subjected to external disturbances. As part of this investigation, experimental results were collected and measurements of external disturbances, typical for such devices, were analyzed.

La microscopie à force atomique (AFM) est un outil de caractérisation d’échantillons tant organiques qu’inorganiques d’intérêt en physique, en biologie et en métallurgie. Le champ d’investigation de la microscopie AFM reste néanmoins restreint à l’étude des propriétés surfaciques des échantillons et la caractérisation sub-surfacique à l’échelle nanométrique n’est pas envisageable au-delà de la nano-indentation. Lors de ce travail, nous nous sommes intéressés à deux techniques de sonde locale complémentaires pour l’investigation volumique haute résolution.La première technique proposée est la microscopie de champ proche ultrasonore (MS-AFM), mise en place et exploitée en collaboration avec Dr. L. Tétard de l’Université Centrale de Floride. Cette technique fournie des informations localisées en profondeur en utilisant des ondes acoustiques dans la gamme de fréquences du MHz. Une étude complète de l’influence des paramètres de fréquences a été réalisée sur des échantillons de calibration et a permis de valider un modèle d’interprétation numérique. Cette technique ultrasonore, non invasive, a été appliquée à la caractérisation de vésicules lipidiques au sein de bactéries lors d’une collaboration avec les Pr. A. Dazzi et M.-J. Virolle, de l’Université Paris Sud Orsay. Un couplage a été réalisé avec la microscopie AFM infra-rouge (AFM-IR). Cette étude a démontré le potentiel d’investigation et d’analyse volumique et chimique d’échantillons biologiques.La seconde technique étudiée est la microscopie micro-onde (SMM), développée en collaboration avec la société Keysight. Cette technique, tout comme la microscopie acoustique, est non invasive et conduit à une caractérisation physico-chimique basée sur l’interaction de micro-ondes (0.2-16 GHz) avec la matière. Dans le cas de métaux, un lien entre la fréquence et la profondeur d’investigation a été mis en évidence. Cette technique a été appliquée à l’étude de la diffusion d’élément chimique léger au sein de métaux et à la mesure des propriétés mécaniques des matériaux. L’ensemble de ces résultats ouvre un nouveau champ d’investigation de la tomographie 3D dans l’analyse volumique à l’échelle nanométrique que ce soit dans le domaine de la biologie ou de la métallurgie. / The atomic force microscope (AFM) is a powerful tool for the characterization of organic and inorganic materials of interest in physics, biology and metallurgy. However, conventional scanning probe microscopy techniques are limited to the probing surface properties, while the subsurface analysis remains difficult beyond nanoindentation methods. Thus, the present thesis is focused on two novel complementary scanning probe techniques for high-resolution volumetric investigation that were develop to tackle this persisting challenge in nanometrology. The first technique considered, called Mode Synthesizing Atomic Force Microscopy (MSAFM), has been exploited in collaboration with Dr. Laurene Tetard of University of Central Florida to explore the volume of materials with high spatial resolution by means of mechanical actuation of the tip and the sample with acoustic waves of frequencies in the MHz range. A comprehensive study of the impact of the frequency parameters on the performance of subsurface imaging has been conducted through the use of calibrated samples and led to the validation of a numerical model for quantitative interpretation. Furthermore, this non-invasive technique has been utilized to locate lipid vesicles inside bacteria (in collaboration with Pr. A. Dazzi and M.-J. Virolle of Université Paris Sud, Orsay). Furthermore, we have combined this ultrasonic approach with infra-red microscopy, to add chemical speciation aimed at identifying the subsurface features, which represents a great advance for volume and chemical characterization of biological samples. The second technique considered is the Scanning Microwave Microscopy, which was developed in collaboration with Keysight society. Similar to acoustic-based microscopy, this non-invasive technique provided physical and chemical characterizations based on the interaction of micro-waves radiations with the matter (with frequency ranging from 0.2 and 16 GHz). Particularly, for metallic samples we performed volumetric characterization based on the skin effect of the materials. On the other hand, we have used this technique to analyze the diffusion of light chemical elements in metals and measured the effect of changes in mechanical properties of materials on their conductivity.Overall, these results constitute a new line of research involving non-destructive subsurface high resolution analysis by means of the AFM of great potential for several fields of research.

Adhesion between solid bodies plays a prominent role in a wide variety of situations ranging from tribological applications to dust coagulation initiating the formation of planets. It can be due to various reasons like capillary, electrostatic, van der Waals, and hydrophobic forces. Among these, adhesion due to van der Waals force| which has its origin in permanent or instantaneous electric dipoles present in all atoms and molecules|is of special significance as it is present in all cases. Computational studies on adhesion due to van der Waals force commonly assume it as a surface force due to its short effective range, which is about a few tens of nanometers, in comparison to the length-scales commonly encountered. However, such restrictions are often violated in various important problems. For example, the characteristic dimensions of asperities| which are the smallest roughness elements interacting to cause friction and wear| are usually of nanometer length-scale. In addition, the assumptions inherent in development of surface force model are exact only when the deformations are small. In all such situations, the van der Waals force must be assumed as distributed over the volume. In this work, a computational model is developed by incorporating van der Waals force and short-range repulsion (steric repulsion or Pauli repulsion) as body forces distributed over the volume in a large deformation, static/transient, finite element framework. First the development of the general formulation is discussed, and then it is specialized for various considerations like handling symmetry and interaction between an elastic body and a rigid half-space, which offer significant computational advantages over the general formulation. The applicability of the model is illustrated by using a number of benchmark and practical problems. The comparison of the analysis results and well-established analytical models are provided, which validates our method. As a specific example, the smooth change of interaction force from a thin-rod model to a at-plate model on increasing the cross-sectional areas of two interacting elastic rods is demonstrated. The impact of elastic bodies in presence adhesion, and the associated energy loss is an important concern in studies regarding the origin of friction. Therefore, adhesive impact of elastic rods and spheres is studied using our formulation. Emphasis of the study is on finding the apparent energy loss during impact, which represents the part of energy lost to elastic stress waves remaining in the body after the impact, and hence not available for rebound motion. In case of impact of elastic rods on a rigid half-space, it is shown that the apparent energy loss is a unique function of the tensile strain energy developed in the rod due to van der Waals attraction. A one-dimensional model is developed for this case to determine the energy loss based on the specified problem parameters, which can be used to predict practically relevant phenomena like capture. In case of impact of elastic spheres, which is often correlated with asperity interactions, the energy loss is found to be significant only if adhesion-induced instabilities occur. The behavior shown by rods and spheres are probably at the two extremes with regards to energy loss during impact of elastic bodies in presence of adhesion. Practical use of the formulation is demonstrated by applying it to the study of amplitude variation and phase shifts in tapping-mode atomic force microscopy. Specifically, the advantage of operating the AFM cantilever just below its natural frequency as compared to operating it just above the natural frequency is demonstrated. Bistable behavior, which is the coexistence of two stable vibration modes under exactly same operating conditions, is shown to be severe when the driving frequency is higher than the natural frequency of AFM cantilever even in the absence of adhesion, which can result in spurious contrast-reversal artifacts during imaging. The hysteresis loop associated with the bistable behavior may lead to erroneous conclusions regarding presence of adhesion. Since this model overcomes the limitations of lumped parameter models and the computational models based on surface force approximation, the results can be used for much more realistic interpretation of experimental data. Computational framework developed in this study achieves the capability for analysis of adhesive contact problems directly from van der Waals interaction and steric repulsion. Such a model can be used for revisiting the fundamental problems in contact mechanics, as well as for providing better insights into experimental observations.

La microscopie à force atomique (AFM) permet de visualiser la topographie d’échantillons organiqueset inorganiques à l’échelle atomique. Les innovations les plus récentes offrent désormais la possibilitéd’accéder aux propriétés nano-mécaniques des échantillons (élasticité, adhésion…). Son panel defonctionnalités permet de pallier aux besoins des nanotechnologies, tant dans les domaines de laphysique, de la chimie que de la biologie.Cependant, les besoins nécessaires à la compréhension des processus biologiques imposent aumicroscope à force atomique des vitesses d’acquisitions rapides, inférieures à la seconde par image. Leséquipements classiques n’offrent pas cette possibilité. C’est pour s’affranchir de ce verrou technologique,pour l’étude dynamique, qu’un prototype de microscope à force atomique à haute-vitesse a étédéveloppé (HS-AFM) en partenariat avec l’équipe du Professeur T. Ando à l’Université de Kanazawa(Japon). Il permet d’atteindre des vitesses de balayage identiques aux vitesses vidéos : 25-50 images/s, enmilieu liquide. Le dispositif est en perpétuelle amélioration : nouvelle boucle d’asservissement, domainesde balayage augmentés. La haute résolution est, quant à elle, assurée par des leviers miniaturisés munisde sur-pointes en carbone. Parallèlement à l’innovation du microscope en lui-même, des modulescomplémentaires ont été développés : module pousse seringue et module chauffant.Le potentiel de ce prototype, développé dans le cadre d’un programme ANR PNANO 2008 HSnanobio-Imaging, a été montré via l’étude d’une petite protéine de choc thermique : la protéine sHspLo18. Cette protéine, issue de la bactérie lactique Oenococcus oeni, offrait la possibilité d’étudier deschangements de degrés d’oligomérisation en fonction du pH, ainsi que le rôle chaperon et lipochaperonen cas de stress environnemental d’autres complexes biologiques. L’utilisation des techniques demicroscopie couplée à des études biochimiques sur ce modèle protéique a permis d’appréhender l’effetdes surfaces sur l’adsorption et la dynamique des complexes biologiques. L’interaction protéine – surfacea pu être approchée et s’avère utile au développement des capteurs à protéines / The atomic force microscopy (AFM) gives access to the topography of organic and inorganic samplesat the atomic scale. The latest innovations offer the possiblity to understand the sample nano-mechanicalproperties (elasticity, adhesion...). Its feature set allows overcoming the demands of nanotechnology,both in the fields of physics, chemistry and biology.However, understanding biological processes require faster acquisitions for the atomic forcemicroscopy, less than a second per frame. As conventional equipment does not offer the possibility toovercome the constraint of time for dynamical studies, a prototype of high-speed atomic forcemicroscope (HS-AFM) was developed in partnership with Professor T. Ando group of Kanazawa University(Japan). It can reach scanning video speed: 25-50 frames/s in a liquid medium. The device is beingconstantly improved: new feedback control, larger scanning sizes. The resolution is provided byminiaturized cantilevers with carbon EBD-tips. In parallel to innovative modules on the microscope, addonshave been developed: syringe pump and heating modules.The potential of the prototype, developed within the framework of the program ANR PNANO 2008HS-nanobio-Imaging, has been shown through the study of a small heat shock protein: the protein sHspLo18. This protein, from the lactic acid bacterium Oenococcus oeni, offered the possibility of a variouschanges of oligomerization degrees according to the pH, and also the chaperone and lipochaperon activityof protein under the influence of an environmental stress. The use of these techniques of microscopiescoupled with biochemical studies on this proteic model allowed to dread the effect of surfaces on theadsorption and the dynamics of biological complexes. The interaction protein – surface coulb be toapprehend and proves to be useful for the development of protein sensors developed in the laboratory

Ternary lipid mixtures composed of cholesterol, saturated (frequently with sphingosine backbone), and unsaturated phospholipids show stable phase separation and are often used as model systems of lipid rafts. Yet, their ability to reproduce raft properties and function is still debated. We investigated the properties and functional aspects of three lipid raft model systems of varying degrees of biological relevance – PSM/POPC/Chol, DPPC/POPC/Chol, and DPPC/DOPC/Chol – using 2H solidstate nuclear magnetic resonance (NMR) spectroscopy, fluorescence microscopy, and atomic force microscopy. While some minor differences were observed, the general behavior and properties of all three model mixtures were similar to previously investigated influenza envelope lipid membranes, which closely mimic the lipid composition of biological membranes. For the investigation of the functional aspects, we employed the human N-Ras protein, which is posttranslationally modified by two lipid modifications that anchor the protein to the membrane. It was previously shown that N-Ras preferentially resides in liquid-disordered domains and exhibits a time-dependent accumulation in the domain boundaries of influenza envelope lipid membranes. For all three model mixtures, we observed the same membrane partitioning behavior for N-Ras. Therefore, we conclude that even relatively simple models of raft membranes are able to reproduce many of their specific properties and functions.

Aim of this student research project was to develop an Aluminium Oxide (Al2O3 ) ALD process from trimethylaluminum (TMA) and Ozone in comparison of two shower head designs. Then studying the detailed characteristics of Al2O3 ALD process using various measurement techniques such as Spectroscopic Ellipsometry (SE), x-ray photoelectron spectroscopy (XPS), atomic force microscopy (AFM). The real-time ALD growth was studied by in-situ SE. In-situ SE is very promising technique that allows the time-continuous as well as time-discrete measurement of the actual growth over an ALD process time. The following ALD process parameters were varied and their inter-dependencies were studied in detail: exposure times of precursor and co-reactant as well as Argon purge times, the deposition temperature, total process pressure, flow dynamics of two different shower head designs. The effect of varying these ALD process parameters was studied by looking upon ALD cycle attributes. Various ALD cycle attributes are: TMA molecule adsorption (Mads ), Ligand removal (Lrem ), growth kinetics (KO3 ) and growth per cycle (GPC).:List of abbreviations and Symbols ........................XII Lists of Figures and Tables ...................................XVIII 1 Introduction .......................................................1 I Theoretical Part ..................................................3 2 Alumina in electronic industry ............................5 3 Atomic Layer Deposition ....................................7 3.1 History . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 8 3.2 Process definition . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 8 3.3 Benefits and limitations . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 8 3.4 ALD growth mechanism of Aluminium oxide from TMA/O 3 . . . . . . . . 9 3.5 Growth kinetics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 12 3.6 Comparison of TMA/O3 and TMA/H2O – A literature survey . . . . 14 4 Spectroscopic Ellipsometry .....................................................17 4.1 Introduction . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 18 4.2 Measuring Principle . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 18 4.3 Fitting and models . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 20 4.4 Advantages and limitations . . . . . . . . . . . . . . . . . . . . . . . . . . . 22 5 X-Ray Photoelectron Spectroscopy ..............................................25 5.1 Introduction . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 26 5.2 XPS mechanism . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 26 5.3 XPS analysis . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 26 5.4 Advantages and limitations . . . . . . . . . . . . . . . . . . . . . . . . . . . 27 6 Atomic Force Microscopy .............................................................29 II Experimental Part ......................................................................31 7 Methodologies ............................................................................33 7 .1 Experimental setup . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 34 7 .2 ALD process . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 36 7 .3 Experiment design . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 36 7 .4 Spectroscopic Ellipsometry . . . . . . . . . . . . . . . . . . . . . . . . . . . 38 7 .4.1 Tool and software . . . . . . . . . . . . . . . . . . . . . . . . . . . . 38 7 .4.2 Data acquisition . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 38 7 .4.3 Data evaluation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 40 7 .4.4 Post processing of data . . . . . . . . . . . . . . . . . . . . . . . . . 41 7 .4.5 Sources of errors in SE . . . . . . . . . . . . . . . . . . . . . . . . . 43 8 Results and discussion ..........................................................47 8.1 Introduction . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 48 8.2 Kinetic ALD characteristic curves . . . . . . . . . . . . . . . . . . . . . . . . 48 8.2.1 TMA exposure . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 49 8.2.2 Argon purging after TMA exposure . . . . . . . . . . . . . . . . . . . 50 8.2.3 Ozone exposure . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 51 8.2.4 Argon purging after ozone exposure . . . . . . . . . . . . . . . . . . 52 8.3 Impact of process parameters on characteristic ALD growth attributes and film properties . . . . . . . . . .. . . . . . . . . . . . . . . . 53 8.3.1 Total process pressure . . . . . . . . . . . . . . . . . . . . . . . . . . 53 8.3.2 Ozone flow . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 54 8.3.3 Deposition temperature . . . . . . . . . . . . . . . . . . . . . . . . . 56 8.4 Reproducibility . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 61 9 Conclusions and outlook .......................................................63 References ...............................................................................68 III Appendix .............................................................................77 A Reference temperatures and ozone flow.............................. 79 B Process parameters ..............................................................81