京都大学 / 0048 / 新制・課程博士 / 博士(医学) / 甲第18899号 / 医博第4010号 / 新制||医||1009(附属図書館) / 31850 / 京都大学大学院医学研究科医学専攻 / (主査)教授 生田 宏一, 教授 三森 経世, 教授 岩井 一宏 / 学位規則第4条第1項該当 / Doctor of Medical Science / Kyoto University / DFAM

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Submitted by JOSIANE SANTOS DE OLIVEIRA (josianeso) on 2018-08-15T16:21:47Z No. of bitstreams: 1 Guilherme Pritsch Braga_.pdf: 6911659 bytes, checksum: d2f5aa101dd35a0b89d630e24b710d56 (MD5) / Made available in DSpace on 2018-08-15T16:21:47Z (GMT). No. of bitstreams: 1 Guilherme Pritsch Braga_.pdf: 6911659 bytes, checksum: d2f5aa101dd35a0b89d630e24b710d56 (MD5) Previous issue date: 2018-04-23 / Nenhuma / Esse trabalho tem como objetivo analisar o impacto da inclusão de pessoas com de deficiência (PcD) em equipes de trabalho. No Brasil, a lei 8.213/91 obriga empresas a partir de 100 funcionários a incluir PcD em seu quadro de colaboradores. Através da pesquisa foi possível entender a influência da legislação nesse processo e o impacto que isso gera nas equipes de trabalho. Para tanto foi buscado teorias que embasassem o tema e indicadores que poderiam ser utilizados para esse objetivo. O tema diversidade em equipes de trabalho e resultados é amplamente discutido no meio acadêmico e empresarial, contudo não contempla as pessoas com deficiência em suas análises. Foi utilizada essa literatura para embasar a construção de uma survey que foi aplicada em 8 equipes de trabalho de 5 diferentes empresas do Rio Grande do Sul e São Paulo. A pesquisa foi quantitativa, de cunho exploratório e com uma temporalidade longitudinal. Foram definidos 9 conjuntos de indicadores para serem avaliados nos resultados das equipes de trabalho. Foi realizada uma coleta antes da entrada de uma pessoa com deficiência e outra 3 meses após a inclusão desse novo colaborador. Dessa forma, foi possível mensurar o impacto nos resultados das equipes de trabalho antes e depois da inclusão de uma PcD. Ao agrupar as respostas das equipes e realizar a comparação de médias entre a coleta 1 e coleta 2 e não foi encontrada uma diferença significativa na comparação das médias dos conjuntos de indicadores escolhidos. Foi ressaltada a relevância desse resultado tendo em vista as barreiras que existem para a inclusão de PcD no mercado de trabalho. Não haver uma diferença significativa entre a os resultados, antes e depois da inclusão de uma pessoas com deficiência, contribui para desmistificar percepções equivocadas de empresas que possuem resistências na inclusão. Foi também proposto um instrumento para mensuração de resultados das equipes de trabalho, considerando a inclusão de uma pessoa com deficiência como variável. Esse instrumento foi desenvolvido com base em todo referencial de literatura, conhecimentos práticos adquiridos com a pesquisa e análise dos resultados. Dessa forma, deixando um instrumento que pode ser aplicado para estudos no meio acadêmico e empresarial. / This study aims to analyze the impact of inclusion of people with disabilities (PwD) on work teams. In Brazil there is a law that requires companies with 100 employees or more to include PwD in their workforce. Through the research it was possible to understand the influence of the legislation in this process and the impact that this generates on work teams. Were brought theories that supported the theme and indicators that could be used for this purpose. The theme of team diversity and outcomes is widely discussed in academic and business, but does not address people with disabilities in their analysis. This literature was used to base the construction of a survey that was applied in 8 work teams of 5 different companies from Rio Grande do Sul and São Paulo. The research was quantitative, of an exploratory nature and with a longitudinal temporality. Nine sets of indicators were defined to evaluate the results of the work teams. A collect was performed before the entry of one person with a disability and another 3 months after the inclusion of this new employee. This way, it was possible to measure the impact on the results of work teams before and after the inclusion of a PwD. By grouping the team responses and comparing results between collection 1 and collection 2, no significant difference was found in the comparison of the chosen sets of indicators. It was emphasized the relevance of this result considering the barriers that exist for including a PwD in the labor market. Not having a significant difference between the results, before and after the inclusion of people with disabilities, contributes to demystify misperceptions of companies that have resistance in inclusion. It was also proposed an instrument for measuring the results of the work teams, considering the inclusion of a person with disability as a variable. This instrument was developed based on all references of literature, practical knowledge acquired with the research and analysis of the results. Thus, leaving an instrument that can be applied to academic studies and for business.

Eukaryotic organisms rely on the coordinated beating of motile cilia for a multitude of fundamental reasons. In smaller organisms, such as Paramecium and the single cell alga Chlamydomonas reinhardtii, it is a matter of propulsion, to swim towards a higher concentration of nutrients or away from damaging environments. Larger organisms use instead the coordinated motion of cilia to push fluid along an epithelium: examples common to mammals are the circulation of cerebrospinal fluid in the brain, the transport of ovules in the fallopian tubes, and breaking the left/right symmetry in the embryo. Another notable example, and one that is central to this thesis, is mucociliary clearance in human airways: A carpet of motile cilia helps keeping the cell surface free from pathogens and foreign particles by constantly evacuating from lungs, bronchi, and trachea a barrier of mucus. The question of how motile cilia interact with one another to beat in a coordinated fashion is an open and pressing one, with immediate implications for the medical community. In order for the fluid propulsion to be effective, the motion of cilia needs to be phase-locked across significant distances, in the form of travelling waves (``metachronal waves''). It is still not known how this long-range coordination emerges from local rules, as there is no central node regulating the coordination among cilia. In the first part of this thesis I will focus on studying the coordination in carpets of cilia with a top-down approach, by proposing, implementing, and applying a new method of analysing microscope videos of ciliated epithelia. Chapter 1 provides the reader with an introduction on motile cilia and flagella, treating their structure and motion and reporting the different open questions currently tackled by the scientific community, with particular interest in the coordination mechanisms of cilia and the mucociliary clearance apparatus. Chapter 2 introduces Differential Dynamic Microscopy (DDM), a powerful and versatile image analysis tool that bridges the gap between spectroscopy and microscopy by allowing to perform scattering experiments on a microscope. The most interesting aspects of DDM for this work are that it can be applied to microscope videos where it is not possible to resolve individual objects in the field of view, and it requires no user input. These two characteristics make DDM a perfect candidate for analysing several hundred microscope videos of weakly scattering filaments such as cilia. In Chapter 3 I will present how it is possible to employ DDM to extract a wealth of often-overlooked information from videos of ciliated epithelia: DDM can successfully probe the ciliary beat frequency (CBF) in a sample, measure the direction of beating of the cilia, and detect metachronal waves and read their direction and wavelength. In vitro ciliated epithelia however often do not show perfect coordination or alignment among cilia. For the analysis of these samples, where the metachronal coordination might not be evident, we developed a new approach, called multiscale DDM (multiDDM), to measure a coordination length scale, a characteristic length of the system over which the coordination between cilia is lost. The new technique of multiDDM is employed in Chapter 4 to study how the coordination among cilia changes as a response to changes in the rheology of the mucous layer. In particular, we show that cilia beating under a thick, gel-like mucus layer show a larger coordination length scale, as if the mucus acted as an elastic raft effectively coupling cilia over long distances. This is corroborated by the coordination length scale being larger in samples from patients affected by Cystic Fibrosis than in healthy samples, and much shorter when the mucus layer is washed and cilia therefore beat in a near-Newtonian fluid. We then show how it is possible to employ multiDDM to measure the effectiveness of drugs in recovering, in CF samples, a coordination length scale typical of a healthy phenotype. In the second part I will focus instead on the single cilium scale, showing how we can attempt to link the beating pattern of cilia to numerical simulations studying synchronisation in a model system. In particular in Chapter 5 I will describe our approach to quantitatively describe the beating pattern of single cilia obtained from human airway cells of either healthy individuals or patients affected by Primary Ciliary Dyskinesia. Our description of the beating pattern, and the selection of a few meaningful, summary parameters, are then shown to be accurate enough to discriminate between different mutations within Primary Ciliary Dyskinesia. In Chapter 6 instead I report the results obtained by coarse-graining the ciliary beat pattern into a model system consisting of two ``rotors''. The rotors are simulated colloidal particles driven along closed trajectories while leaving their phase free. In my study, the trajectories followed by the rotors are analytical fits of experimental trajectories of the centre of drag of real cilia. The rotors, that are coupled only via hydrodynamics interactions, are seen to phase-lock, and the shape of the trajectory they are driven along is seen to influence the steady state of the system.

Rare diseases, when considered as a whole, affect up to 7% of the population, which would represent 3.5 million individuals in the United Kingdom alone. However, while 'personalised medicine' is now yielding remarkable results using recent sequencing technologies in terms of diagnosing genetic conditions, we have made much less headway in translating this patient information into therapies and effective treatments. Even with recent calls for greater research into personalised treatments for those affected by a rare disease, progress in this area is still severely lacking, in part due to the astronomical cost and time involved in bringing treatments to the clinic. Gene correction using the recently-described genome editing technology CRISPR/Cas9, which allows precise editing of DNA, offers an exciting new avenue of treatment, if not cure, for rare diseases; up to 80% of which have a genetic component. This system allows the researcher to target any locus in the genome for cleavage with a short guide-RNA, as long as it precedes a highly ubiquitous NGG sequence motif. If a repair sequence is then also provided, such as a wild-type copy of the mutated gene, it can be incorporated by homology-directed repair (HDR), leading to gene correction. As both guide-RNA and repair template are easily generated, whilst the machinery for editing and delivery remain the same, this system could usher in the era of 'personalised medicine' and offer hope to those with rare genetic diseases. However, currently it is difficult to test the efficacy of CRISPR/Cas9 for gene correction, especially in vivo. Therefore, in my PhD I have developed a novel fluorescent reporter system which provides a rapid, visual read-out of both non-homologous end joining (NHEJ) and homology-directed repair (HDR) driven by CRISPR/Cas9. This system is built upon a cassette which is stably and heterozygously integrated into a ubiquitously expressed locus in the mouse genome. This cassette contains a strong hybrid promoter driving expression of membrane-tagged tdTomato, followed by a strong stop sequence, and then membrane-tagged EGFP. Unedited, this system drives strong expression of membrane-tdTomato in all cell types in the embryo and adult mouse. However, following the addition of CRISPR/Cas9 components, and upon cleavage, the tdTomato is rapidly excised, resulting via NHEJ either in cells without fluorescence (due to imperfect deletions) or with membrane-EGFP. If a repair template containing nuclear tagged-EGFP is also supplied, the editing machinery may then use the precise HDR pathway, which results in a rapid transition from membrane-tdTomato to nuclear- EGFP. Thereby this system allows the kinetics of editing to be visualised in real time and allows simple scoring of the proportion of cells which have been edited by NHEJ or corrected by HDR. It therefore provides a simple, fast and scalable manner to optimise reagents and protocols for gene correction by CRISPR/Cas9, especially compared to sequencing approaches, and will prove broadly useful to many researchers in the field. Further to this, I have shown that methods which lead to gene correction in our reporter system are also able to partially repair mutations found in the disease-causing gene, Zmynd10; which is implicated in the respiratory disorder primary ciliary dyskinesia (PCD), for which there is no effective treatment. PCD is an autosomal-recessive rare disorder affecting motile cilia (MIM:244400), which results in impaired mucociliary clearance leading to neonatal respiratory distress and recurrent airway infections, often progressing to lung failure. Clinically, PCD is a chronic airway disease, similar to CF, with progressive deterioration of lung function and lower airway bacterial colonization. However, unlike CF which is monogenic, over 40 genes are known to cause PCD. The high genetic heterogeneity of this rare disease makes it well suited to such a genome editing strategy, which can be tailored for the correction of any mutated locus.

Concerns about climate changes and scarcity of fossil fuels are rising. Hence wood is becoming an attractive source of renewable energy and raw material and these new dimensions have prompted increasing interest in wood formation in trees, in both the scientific community and wider public. In this thesis, the focus is on a key process in wood development: programmed cell death (PCD) in the development of xylem elements. Since secondary cell wall formation is dependent, inter alia, upon the life time of xylem elements, the qualitative features of wood will be affected by PCD in xylem, about which there is little information. This thesis focuses on the anatomical, morphological and transcriptional features of PCD during xylem development in both the stem of hybrid aspen, Populus tremula (L.) x tremuloides (Michx.) and the hypocotyl of the herbaceous model system Arabidopsis thaliana (L. Heynh.). In Populus, the progressive removal of organelles from the cytoplasm before the time of death (vacuolar bursts) and the slowness of the cell death process, illustrated by DNA fragmentation assays (such as TUNEL and Comet assays), have been ascertained in the xylem fibres by microscopic analyses. Furthermore, candidate genes for the regulation of fibre cell death were identified either from a Populus EST library obtained from woody tissues undergoing fibre cell death or from microarray experiments in Populus stem, and further assessed in an in silico comparative transcriptomic analysis of Arabidopsis thaliana. These candidate genes were either putative novel regulators of fibre cell death or members of previously described families of cell death-related genes, such as autophagy-related genes. The induction of the latter and the previous microscopic observations suggest the importance of autophagy in the degradation of the cytoplasmic contents specifically in the xylem fibres. Vacuolar bursts in the vessels were the only previously described triggers of PCD in the xylem, which induce the very rapid degradation of the nuclei and surrounding cytoplasmic contents, therefore unravelling a unique previously unrecorded type of PCD in the xylem fibres, principally involving autophagy. Arabidopsis is an attractive alternative model plant for exploring some aspects of wood formation, such as the characterisation of negative regulators of PCD. Therefore, the anatomy of Arabidopsis hypocotyls was also investigated and the ACAULIS5 (ACL5) gene, encoding an enzyme involved in polyamine biosynthesis, was identified as a key regulator of xylem specification, specifically in the vessel elements, though its negative effect on the cell death process. Taken together, PCD in xylem development seems to be a highly specific process, involving unique cell death morphology and molecular machinery. In addition, the technical challenges posed by the complexity of the woody tissues examined highlighted the need for specific methods for assessing PCD and related phenomena in wood. / Oron för klimatförändringar och brist på fossila bränslen har ökat påtagligt under de senaste åren. De enorma möjligheter som skogsråvaran erbjuder som alternativ källa för förnyelsebar energi och råmaterial har väckt ett stort intresse också för den biologiska processen bakom vedbildning i träd. Denna avhandling fokuserar på en viktig process i vedbildning: programmerad celldöd (PCD) i xylemet. Xylemcellernas livstid påverkar bildningen av sekundära cellväggar, vilket i sin tur påverkar vedens kvalitativa egenskaperna, så som veddensitet. Trots dess betydelse för viktiga egenskaper hos vedråvaran existerar fortfarande väldigt lite information om xylem PCD på cellulär eller molekylär nivå. I den här avhandlingen belyses de anatomiska, morfologiska och genetiska aspekterna av PCD i xylemutveckling i både stam av hybridasp, Populus tremula (L.) x tremuloides (Michx.) och hypokotyl av det örtartade modellsystemet Arabidopsis thaliana (L. Heynh.). Xylemet i både Populus och Arabidopsis består av två olika celltyper; de vattentransporterade kärlen och de stödjande fibrerna. Det är känt att celldöd i kärlen pågår mycket snabbt efter att den centrala vakuolen brister och de hydrolytiska enzymer släpps in i cytoplasman. I den här avhandlingen ligger fokus på fibrerna i Populus xylemet. Med hjälp av mikroskopianalyser av cellmorfologin (elektronmikroskopi) och DNA-fragmentering i cellkärnan (TUNEL- och Comet-analyser) kunde vi konstatera att till skillnad från kärlen så uppvisar fibrerna en långsam och progressiv nedbrytning av organellerna och cellkärnans DNA före vakuolbristning. Dessutom har kandidatgener för reglering av fibercelldöd identifierats antingen från ett Populus EST bibliotek från vedartade vävnader som genomgår fibercelldöd eller från mikroarray experiment i Populus stam. Dessa kandidatgener är antingen potentiella nya regulatorer av fibercelldöd eller medlemmar av tidigare beskrivna familjer av celldödsrelaterade gener. Bland de sistnämnda finns autofagi-relaterade gener, vilket stöder funktionen av autofagi i samband med autolys av cellinnehållet i xylemfibrerna. Dessa studier pekar därför på en typ av PCD som har inte tidigare beskrivits för xylemet. Arabidopsis är ett alternativt växtmodellsystem för studier av vissa aspekter av vedbildningen, såsom karakteriseringen av negativa regulatorer av PCD. Därför har också hypokotylanatomin analyserats, och ACAULIS5 (ACL5) genen, som kodar för ett enzym i biosyntesen av polyaminer, har visats vara en viktig regulator av xylemspecifikation genom dess negativa effekt på kärlens celldöd. Sammantaget visar denna avhandling att PCD i xylemutvecklingen verkar involvera unika morfologiska och molekylära mekanismer. Vi visar dessutom att komplexiteten hos de vedartade vävnaderna leder till ett behov av bättre anpassade verktyg för att djupare kunna bedöma PCD och liknande fenomen i veden. / Även med namnet Moreau-Courtois, Charleen L. samt Moreau, Charleen.

The delivery of quality healthcare to all citizens at reasonable costs is an important challenge. With the increase in the aging population, the costs of managing chronic diseases increase. Today, healthcare services tend to shift from recovery to prevention. Remote healthcare monitoring is crucial for prevention and monitoring of chronic diseases since they require continuous and long-term monitoring. The advances in networking, mobile communications and medical device technologies offer a great potential to realize remote healthcare monitoring. However, seamless integration of multi-modal medical devices to the existing healthcare information systems is necessary for the automated use of medical device observations in related applications. The thesis addresses the automatic acquisition and use of multi-modal medical device observations in healthcare information systems. The interoperability of medical devices with healthcare information systems requires both physical connectivity and application level interoperability. Therefore, the thesis concentrates on both the medical device domain and the interoperability efforts on the existing healthcare information systems. It provides an interoperability solution based on ISO/IEEE 11073 and HL7 standards. This work is also realized the automatic acquisition and use of multi-modal medical device observations in an intelligent healthcare monitoring and decision support system which is developed as a part of the IST-027074 SAPHIRE project funded by the European Commission.

Die Arbeit beschreibt die Anfertigung eines speziellen SOI-Substrates, bei dem eine strukturierte Kobaltdisilizidschicht zwischen dem vergrabenen Oxid und der Silizium- Bauelementeschicht angeordnet ist. Dieses soll für die gemeinsame Integration bipolarerer und unipolarerer Bauelemente auf einem SOI-Substrat im Bereich der Höchstfrequenztechnik Anwendung finden. Verschiedene Technologien zur Herstellung von SOI-Substraten sowie deren Eigenschaften werden vorgestellt und in Hinblick auf eine mögliche Anwendung diskutiert. Schließlich wurden die konventionellen Technologien, Bond and Etchback SOI (BESOI) und wasserstoffinduzierte Delamination (SmartCut®), als geeignet ausgewählt. Es wurden erstmalig durchgängige Technologiekonzepte erarbeitet, welche die Prozesse zur SOI- Substratfertigung und die Teilschritte zur Herstellung hochwertiger Kobaltdisilizidschichten mittels des Kobalt-Salicide-Prozesses enthalten. Schwerpunkte bei der Silizidherstellung waren die Metallabscheidung mit sehr guter Homogenität sowie die zur Silizierung notwen-digen Hochtemperaturprozesse. Weiterhin wurde ein nasschemischer Prozess entwickelt, welcher das Ätzen der Ausgangsmetalle, selektiv zur entstehenden Silizidschicht, ermöglicht. Ein Schlüsselprozess in beiden Technologien ist das Waferbonden, welches in Hinblick auf Funktionalität und Fehlerfreiheit optimiert wurde. Für den BESOI-Prozess ist das Wafergrinden die kritische Technologie. Dabei war es vor allem notwendig, eine optimale Restsiliziumdicke zu finden. Bei der SmartCut®-Technologie stellte die Wasserstoffionen-implantation durch abwechselnde Gebiete mit und ohne Silizid mit der gleichen Reichweite der implantierten Ionen eine große Herausforderung dar. Die Grenzfläche zwischen dem Kobaltdisilizid und dem Silizium der Bauelementeschicht ist bei Verwendung des konventionellen Kobalt-Salicide-Prozesses zu rau für die Anwendung als vergrabenes Silizid in einem SOI-Substrat. Durch Modifikation von Prozessparametern und durch die Anordnung verschiedener Schichten zwischen Silizium und Kobalt während der Silizidherstellung wurde versucht, eine Verbesserung der Grenzflächenqualität zu erzielen. Mit der Verwendung einer polykristallinen Siliziumzwischenschicht gelang es schließlich, die Rauhigkeitswerte signifikant zu senken. Schließlich wurde die Eigenschaft des Kobalts untersucht, in den Siliziumkristall einzudringen und die Rekombinationslebensdauer der Minoritätsladungsträger zu senken. Durch die Verwendung eines reineren Sputtertargets und die Modifikation der Schichtgeometrien während der Silizidherstellung wurde versucht, eine Verbesserung der Lebensdauerwerte zu erzielen.

The thesis deals with the design, construction, production and testing of cutters with polycrystalline diamond cutting edges. Polycrystalline diamond is a suitable cutting material for machining very abrasive materials such as aluminum alloys or composite materials. The design of the tool is focused on the application of the chip breaker on the front of the tool. The aim of the solution is to reduce the cutting force in the machining of the aluminum alloy used in the aerospace industry. The first part of the thesis deals with problems related to milling technology. The practical part describes the design and construction of prototype cutting tools. Three tools were designed for experimental measurement. The technology of cutting tools made from super hardened cutting materials with laser technology is presented. The experimental part of the thesis is a measurement of the cutting force according to cutting parameters and machined material.

This master´s thesis deals with an examination of different solution types a for the chemical passivation of a silicon surface. Various solutions are tested on silicon wafers for their consequent comparison. The main purpose of this work is to find optimal solution, which suits the requirements of a time stability and start-up velocity of passivation, reproducibility of the measurements and a possibility of a perfect cleaning of a passivating solution remainig from a silicon surface, so that the parameters of a measured silicon wafer will not worsen and there will not be any contamination of the other wafers series in the production after a repetitive return of the measured wafer into the production process. The cleaning process itself is also a subject of a development.