Medimos a acuidade visual em crianças com paralisia cerebral do tipo espástica, classificadas em tetraplégicas, diplégicas e hemiplégicas, de acordo com o seu prejuízo motor, pelo método dos potenciais visuais evocados de varredura. Encontramos uma redução na acuidade visual em todos as crianças com tetraplegia e diplegia e em 94% das crianças com hemiplegia. Ambliopia foi identificada em 16% das crianças. Uma alta correlacão entre o prejuízo motor e a redução da acuidade visual foi encontrada para todas as classes. Concluímos que a acuidade visual está reduzida na paralisia cerebral espástica e que esta é de origem cortical, uma vez que o exame oftalmológico de todas as crianças era normal. / We measured the visual acuity in children with spastic cerebral palsy classified as tetraplegic, diplegic and hemiplegic according to their motor impairment by the sweep visual evoked potential method. We found a reduction in the visual acuity of all tetraplegic and diplegic and in 94% of the hemiplegic children. Ambliopia was found in 16% of children. A high correlation was found between the motor impairment and the reduction in the visual acuity. We conclude that the visual acuity was reducted in the spastic cerebral palsy and the origins are presumed to be cortical since the ophthalmological exam in all children was normal.

Ce projet vise à comprendre comment la structure génétique intra-spécifique d'espèces végétales tropicales emblématiques et de l’espèce humaine a été affectée par les variations spatio-temporelles de l’environnement actuel et passé. Nous avons développé une approche d’inférence génétique basée sur la théorie de la coalescence pour évaluer l’influence potentielle des changements climatiques passés sur l’évolution de la distribution géographique et de la diversité génétique neutre et/ou adaptative d’Amborella trichopoda Baill. en Nouvelle-Calédonie (espèce-sœur des angiospermes, données NGS et microsatellites), de Coffea canephora Pierre ex A. Froehn en Afrique tropicale (caféier Robusta, données NGS) et de populations européenne et africaine (Luhya, Kenya) d’humains anatomiquement modernes (données NGS issues du Projet 1000 Génomes). Nos travaux suggèrent que les fluctuations climatiques du Pleistocène tardif ont joué un rôle majeur sur l’évolution de la diversité génétique des espèces étudiées de milieux tropicaux et tempérés, avec une empreinte remarquable du Dernier Maximum Glaciaire (DMG, 21 000 ans avant le présent). Les contractions démographiques associées à la glaciation planétaire ont vraisemblablement conduit à la divergence entre les lignées génétiques d’Amborella et participé à l’accumulation des différences génétiques entre les lignées de C. canephora. Nos résultats suggèrent que les événements de glaciation planétaire ont probablement entraîné une différenciation génétique idiosyncratique dans les forêts tropicales humides mais l’intensité de cette réponse semble avoir varié entre espèces. Nous avons également identifié de nombreux événements passés de sélection dans les génomes de la population humaine européenne qui ont été vraisemblablement provoquées par les conditions environnementales au cours du DMG. Les adaptations phénotypiques associées ont probablement assuré le maintien de l’expansion démographique en dépit des pressions de sélection nouvelles auxquelles les populations étaient confrontées au cours du dernier âge glaciaire en Europe. / This project aims at understanding how the structure of the intra-specific genetic diversity in emblematic tropical plant species and in the human species was shaped by the spatiotemporal variation of current and past environments. We developed a genetic inference approach based on the coalescent theory to assess the potential impact of past climatic change onto the evolution of the geographic range and of the neutral and/or adaptive genetic diversity in Amborella trichopoda Baill. in New Caledonia (sister-species of all extant angiosperms, NGS and microsatellite datasets), in Coffea canephora Pierre ex A. Froehn in tropical Africa (Robusta coffee, NGS dataset) and in North-Western European and African (Luhya, Kenya) human populations (NGS dataset 1000 Genomes Project). We found that the climatic fluctuations of the Late Pleistocene influenced the evolution of genetic diversity in these species distributed in temperate and tropical environments. The environmental conditions during the Last Glacial Maximum (LGM, 21.000 years before present) appear as an important factor. The demographic contraction associated with the last global glaciation influenced the divergence between Amborella genetic lineages and contributed to the accumulation of genetic differences between C. canephora lineages. Our results suggest that global glaciation events likely drove idiosyncratic genetic differentiation in tropical rain forests but the intensity of this response varied between species. We also identified multiple events of selection in the genomes of the European human population which were likely triggered by the environmental conditions during the LGM. The associated phenotypic adaptations probably allowed the paleo-populations to maintain their demographic expansion despite the new kinds of selective pressure they faced during the last glacial age in Europe.

Submitted by Edisangela Bastos (edisangela@ufpa.br) on 2014-01-13T19:57:26Z No. of bitstreams: 2 license_rdf: 23898 bytes, checksum: e363e809996cf46ada20da1accfcd9c7 (MD5) Dissertacao_DesenvolvimentoMetodologiasAutomaticas.pdf: 1143947 bytes, checksum: 8fc7b7409ff57fceb1ecd680a1020795 (MD5) / Approved for entry into archive by Ana Rosa Silva(arosa@ufpa.br) on 2014-01-16T15:16:01Z (GMT) No. of bitstreams: 2 license_rdf: 23898 bytes, checksum: e363e809996cf46ada20da1accfcd9c7 (MD5) Dissertacao_DesenvolvimentoMetodologiasAutomaticas.pdf: 1143947 bytes, checksum: 8fc7b7409ff57fceb1ecd680a1020795 (MD5) / Made available in DSpace on 2014-01-16T15:16:01Z (GMT). No. of bitstreams: 2 license_rdf: 23898 bytes, checksum: e363e809996cf46ada20da1accfcd9c7 (MD5) Dissertacao_DesenvolvimentoMetodologiasAutomaticas.pdf: 1143947 bytes, checksum: 8fc7b7409ff57fceb1ecd680a1020795 (MD5) Previous issue date: 2012 / Neste trabalho, são propostas metodologias para otimização do parâmetro de forma local c do método RPIM (Radial Point Interpolation Method). Com as técnicas apresentadas, é possível reduzir problemas com inversão de matrizes comuns em métodos sem malha e, também, garantir um maior grau de liberdade e precisão para a utilização da técnica, já que se torna possível uma definição semi-automática dos fatores de forma mais adequados para cada domínio de suporte. Além disso, é apresentado um algoritmo baseado no Line Sweep para a geração eficiente dos domínios de suporte. / In this thesis, a methodology is proposed for automatically (and locally) obtaining the shape factor c for the Gaussian basis functions, for each support domain, in order to increase numerical precision and mainly to avoid matrix inversion impossibilities. The concept of calibration function is introduced, which is used for obtaining c. The methodology developed was applied for a 2-D numerical experiment, which results are compared to analytical solution. This comparison revels that the results associated to the developed methodology are very close to the analytical solution for the entire bandwidth of the excitation pulse. The proposed methodology is called in this work Local Shape Factor Calibration Method (LSFCM).

<p>Sex chromosomes are useful for the study of how factors such as mutation, selection, recombination and effective population size affect diversity and divergence.</p><p>A comparison of gametologous introns in seven different bird species revealed a complete lack of diversity on the female-specific W chromosome. In contrast, Z had at least one segregating site in all examined species. This can be explained by the lower mutation rate and lower effective population size of W but also suggests that selection affects diversity levels on the non-recombining W chromosome.</p><p>In a diverse set of chicken breeds, the Z chromosome showed reduced diversity compared to autosomes and significant heterogeneity in levels of variation. High variance in male reproductive success, leading to a reduced Z chromosome effective population size, can partly explain this observation. In addition, we suggest that selective sweeps frequently act on the Z chromosome and are responsible for a significant part of the observed Z reduction. </p><p>Differences in the mutation rate of Z and W chromosome sequences indicate that the time spent in male germ line is important for the mutation rate, but does not exclude a specifically reduced mutation rate on the Z chromosome. Estimates of mutation rate in autosomal, Z- and W-linked chicken and turkey sequences indicate a slight reduction in the rate on Z. However, due to rate heterogeneity among introns this reduction is not significant and we cannot exclude male biased mutation as the single cause of rate variation between the chromosomal classes.</p><p>Analysis of indel mutation rates in avian and mammalian gametologous introns show frequent occurrence of indels on both W and Y, excluding meiotic recombination as the only source of this type of mutation. The different indel rate patterns in birds (Z>W) and mammals (X=Y) suggest that indels are caused by both replication and recombination.</p>

This thesis is concerned with kinetic characterisation of theinsertion compound LiMn2O4, which is used as positive electrodematerial in rechargeable lithium batteries. Three different typesof electrode configurations have been investigated, namely singleparticles, thin films and composite electrodes. Differentelectrochemical techniques, i.e. linear sweep voltammetry (LSV),electrochemical impedance spectroscopy (EIS), potential step, andgalvanostatic experiments were applied under various experimentalconditions. The majority of the experimental data were analysedby relevant mathematical models used for describing the reactionsteps of insertion compounds. It was concluded that a model based on interfacialcharge-transfer, solid-phase diffusion and an external iR-dropcould be fairly well fitted to LSV data measured on a singleelectrode system over a narrow range of sweep rates. However, itwas also found that the fitted parameter values vary greatly withthe characteristic length and the sweep rate. This indicates thatthe physical description used is too simple for explaining theelectrochemical responses measured over a large range of chargeand discharge rates. EIS was found to be a well-suited technique for separatingtime constants for different physical processes in the insertionand extraction reaction. It was demonstrated that the impedanceresponse is strongly dependent on the current collector used.According to the literature, reasonable values of theexchange-current density and solid-phase diffusion coefficientwere determined for various states-of-discharge, temperatures andelectrolyte compositions. Experiments were carried out in bothliquid and gel electrolytes. A method which improves thedistinction between the time constants related to thematerial’s intrinsic properties and possible porous effectsis presented. The method was applied to composite electrodes.This method utilises, in addition to the impedance responsemeasured in front of the electrode, also the impedance measuredat the backside of the electrode. Finally, the kinetics of a composite electrode was alsoinvestigated by in situ X-ray diffraction (in situ XRD) incombination with galvanostatic and potentiostatic experiments. Noevidence of lithium concentration gradients could be observedfrom XRD data, even at the highest rate applied (i.e. ~6C), thusexcluding solid-phase diffusion and also phase-boundary movement,as described by Fick’s law, as the ratelimiting step. <b>Key words:</b>linear sweep voltammetry, electrochemicalimpedance spectroscopy, potential step, in situ X-raydiffraction, microelectrodes, electrode kinetics, LiMn2O4cathode, rechargeable lithium batteries

Sex chromosomes are useful for the study of how factors such as mutation, selection, recombination and effective population size affect diversity and divergence. A comparison of gametologous introns in seven different bird species revealed a complete lack of diversity on the female-specific W chromosome. In contrast, Z had at least one segregating site in all examined species. This can be explained by the lower mutation rate and lower effective population size of W but also suggests that selection affects diversity levels on the non-recombining W chromosome. In a diverse set of chicken breeds, the Z chromosome showed reduced diversity compared to autosomes and significant heterogeneity in levels of variation. High variance in male reproductive success, leading to a reduced Z chromosome effective population size, can partly explain this observation. In addition, we suggest that selective sweeps frequently act on the Z chromosome and are responsible for a significant part of the observed Z reduction. Differences in the mutation rate of Z and W chromosome sequences indicate that the time spent in male germ line is important for the mutation rate, but does not exclude a specifically reduced mutation rate on the Z chromosome. Estimates of mutation rate in autosomal, Z- and W-linked chicken and turkey sequences indicate a slight reduction in the rate on Z. However, due to rate heterogeneity among introns this reduction is not significant and we cannot exclude male biased mutation as the single cause of rate variation between the chromosomal classes. Analysis of indel mutation rates in avian and mammalian gametologous introns show frequent occurrence of indels on both W and Y, excluding meiotic recombination as the only source of this type of mutation. The different indel rate patterns in birds (Z&gt;W) and mammals (X=Y) suggest that indels are caused by both replication and recombination.

This thesis presents results from genetic studies conducted in the chicken (Gallus gallus). The domestication of chicken is believed to have been initiated approximately 7,000 – 9,000 years ago in Southeast Asia. Since that time, selective breeding has altered the appearance of the wild ancestor, creating highly specialized chicken lines developed for egg and meat production. The first part of this thesis describes a detailed genetic analysis conducted on an F2 intercross between two phenotypically diverse chicken lines. The two parental lines used in this experiment originated from the same base population and have been developed by divergent selection for juvenile body-weight. Selection during forty generations has resulted in an eight-fold difference in body-weight between the High-Weight Selected (HWS) and Low-Weight Selected (LWS) line. In an attempt to identify the genetic factors differentiating the two lines, a large intercross population was bred to map Quantitative Trait Loci (QTL) affecting body-weight traits. A linkage map was constructed which included 434 genetic markers covering 31 of the 38 chicken autosomes. Although there is a dramatic phenotypic difference between the two founder lines, the QTL analysis for marginal effect could only identify seven QTL, each with small additive effects, influencing body-weight. We extended the genetic analysis to also include a model testing for pair-wise interactions between loci (epistasis). The analysis revealed 15 QTL pairs that affect body-weight and several of those formed a network of interacting loci. These results suggest that the genetic basis for the large difference in body-weight is most likely a result of a combined effect of multiple genetic factors, including QTL with small additive effects in combination with pair-wise interactions between QTL. The second part of this thesis presents two linkage maps. The first map constructed was of the chicken Z chromosome, the second used a genome-wide marker set, including 12,945 SNP markers, to build an updated consensus map of the chicken genome. The resulting consensus map includes 9,268 genetic markers and covers 33 chromosomes, still leaving five microchromosomes without marker coverage. The genome average rate of recombination was estimated to 3.1 cM/Mb, but varied considerably between and within chromosomes. A general trend of elevated recombination rates towards telomeric ends and lower rates near centromeres was observed. This was in concordance to previous reports from mammalian species. Recombination rates in chicken were also found to be highly positively correlated with GC-rich sequences.

The process of evolution is of both scientific and medical interest. This thesis presents several studies using complete genomic reference sequences, comparative genomic data, and intraspecific diversity data to study the two key processes of evolution: mutation and selection. Large duplications, deletions, inversions, and translocations of DNA contribute to genomic variation both between and within species. Human chromosomes 15 and 17 contain a high percentage of dispersed, recently duplicated sequences. Examination of the relationships between these sequences showed that the majority of all duplications within each chromosome could be linked through core sequences that are prone to duplication. Comparison to orthologous sequences in other mammals allowed a reconstruction of the ancestral state of the human chromosomes, revealing that regions of rearrangement specific to the human lineage are highly enriched in chromosome-specific duplications. Comparison to copy number variation data from other studies also shows that these regions are enriched in current human structural variation. One specific region, the MAPT locus at 17q21.31, known to contain an inversion polymorphism in Europeans, was resequenced completely across both human orientation haplotypes and in chimpanzee and orangutan, revealing complex duplication structures at the inversion breakpoints, with the human region being more complex than chimpanzee or orangutan. Fluorescent in-situ hybridization analysis of human, chimpanzee, and orangutan chromosomes showed inversion polymorphisms of independent origin in all three species, demonstrating that this region has been a hotspot of genomic rearrangement for at least twelve million years. These results reveal a mechanistic relationship between sequence duplication and rearrangement in the great apes. We also generated a draft sequence of the chimpanzee genome and compared it to that of the human. Among other findings, this showed that CpG dinucleotides contribute 25% of all single base mutations, with a rate of mutation ~10-fold that of other bases, and that the male mutation rate in great apes is ~5-6 times the female rate, a higher ratio than had been observed in comparisons of primates and rodents. We detected six regions of probable recent positive selection in humans with a statistical method relying on chimpanzee sequence to control for regional variation in mutation rates. Finally, resequencing of several lines of domestic chicken and comparison to the reference chicken genome identified a number of gene deletions fixed in domestic lines and also several potential selective sweeps. Of particular interest are a missense mutation in TSHR nearly fixed in all domestic chickens and a partial deletion of SH3RF2 fixed in a high growth line. The TSHR mutation may play a role in relaxation of seasonal reproduction. A high-resolution QTL mapping experiment showed that the SH3RF2 deletion is significantly associated with increased growth. This work provides important new insights into the mechanics of evolutionary change at both the single nucleotide and structural level and identifies potential targets of natural and artificial selection in humans and chickens.

Die heutige und zukünftige Entwicklung beim Entwurf von Axialverdichtern für die Anwendung in Flugzeugtriebwerken ist immer stärker davon geprägt, ein möglichst großes Druckverhältnis mit möglichst wenigen Stufen zu erzeugen. Ziel ist es, möglichst viel Leistung mit möglichst geringem Gewicht umzusetzen, um die Effizienz der Maschine weiter zu verbessern. Um dies zu erreichen, muss eine Erhöhung der Stufendruckverhältnisse und damit eine Erhöhung der Stufenbelastung in Kauf genommen werden. Die höhere Belastung hat jedoch einen Anstieg der Verluste aufgrund der stärker werdenden Sekundärströmungen zur Folge, und wirkt sich zunächst negativ auf die Stabilität und den Wirkungsgrad der Maschine aus. Diese negativen Effekte können nur durch eine Weiterentwicklung der Schaufelgeometrie kompensiert werden. Hierbei stoßen die derzeit benutzten Entwurfsmethoden jedoch an ihre Grenzen. Aus diesem Grund wurde ein neues Verfahren für den dreidimensionalen Entwurf von Rotoren in Axialverdichtern entwickelt. In dieser Arbeit wird dessen Entwicklung präsentiert. Das Verfahren umfasst die systematische Anwendung von Pfeilung und V-Stellung, sowie die dreidimensionale inverse Berechnung der radialen Skelettlinienverteilung. Um damit eine Verbesserung des Rotorwirkungsgrades zu erreichen, müssen vor allem die kritischen wand- bzw. spaltnahen Bereiche optimal an die Strömungsumgebung angepasst werden. Die vorliegende Arbeit beschreibt ausführlich die theoretischen Grundlagen der Rotorströmung und des Rotorentwurfs. Basierend darauf werden für die Umsetzung eines vollständigen dreidimensionalen Schaufelentwurfs zwei Panelverfahren zur Berechnung der dreidimensionalen jedoch reibungslosen Strömung, zur Lösung der Nachrechen- bzw. der Entwurfsaufgabe, entwickelt. Die Panelverfahren werden angewandt, um eine Methodik für den effektiven Einsatz von Pfeilung, V-Stellung und inverser Skelettlinienberechnung für den dreidimensionalen Rotorentwurf festzulegen. Die gewonnenen Erkenntnisse werden anschließend für den Entwurf eines hochbelasteten Rotors in einem einstufigen Niedergeschwindigkeitsverdichter nach dieser neuen Entwurfsmethodik genutzt. Anhand von Ergebnissen aus Rechnungen und Messungen für diesen Rotor wird die Wirksamkeit des Verfahrens demonstriert. / The recent and future design of axial compressors for aero engines is strongly affected by the aim to generate a high pressure ratio with less stages to increase power and reduce weight to achieve an improved efficiency. This can only be achieved when the stage pressure ratio is raised which leads to increased stage loading. But the higher stage loading results in higher losses caused by stronger secondary flows. This has a negative effect on compressor stability and efficiency. To counteract the negative effects enhanced blade geometries are necessary. With the recently used design methods this is hardly to achieve. For that reason a new method for the three-dimensional design of rotors and stators in axial compressors has been developed. This report summarizes that work. The method accounts for the systematic application of sweep and dihedral as well as the three-dimensional inverse calculation of the camber-line distributions along blade height. To achieve improved efficiency the regions close to the end-walls and the tip and hub gap have to be adapted to the flow environment. The recent report described in detail the theoretical background of the compressor blade flow and compressor blade design. Based on that, two inviscid panel methods for the fully three-dimensional design of compressor blades are described. The panel methods are applied to define a methodology for the effective application of sweep, dihedral and inverse camber-line calculation in a three-dimensional blade design process. Afterwards the findings are used to design a highly-loaded single-stage low-speed research compressor rotor. The validity of the presented design method is proven with CFD and test results.

<p>This thesis is concerned with kinetic characterisation of theinsertion compound LiMn2O4, which is used as positive electrodematerial in rechargeable lithium batteries. Three different typesof electrode configurations have been investigated, namely singleparticles, thin films and composite electrodes. Differentelectrochemical techniques, i.e. linear sweep voltammetry (LSV),electrochemical impedance spectroscopy (EIS), potential step, andgalvanostatic experiments were applied under various experimentalconditions. The majority of the experimental data were analysedby relevant mathematical models used for describing the reactionsteps of insertion compounds.</p><p>It was concluded that a model based on interfacialcharge-transfer, solid-phase diffusion and an external iR-dropcould be fairly well fitted to LSV data measured on a singleelectrode system over a narrow range of sweep rates. However, itwas also found that the fitted parameter values vary greatly withthe characteristic length and the sweep rate. This indicates thatthe physical description used is too simple for explaining theelectrochemical responses measured over a large range of chargeand discharge rates.</p><p>EIS was found to be a well-suited technique for separatingtime constants for different physical processes in the insertionand extraction reaction. It was demonstrated that the impedanceresponse is strongly dependent on the current collector used.According to the literature, reasonable values of theexchange-current density and solid-phase diffusion coefficientwere determined for various states-of-discharge, temperatures andelectrolyte compositions. Experiments were carried out in bothliquid and gel electrolytes. A method which improves thedistinction between the time constants related to thematerial’s intrinsic properties and possible porous effectsis presented. The method was applied to composite electrodes.This method utilises, in addition to the impedance responsemeasured in front of the electrode, also the impedance measuredat the backside of the electrode.</p><p>Finally, the kinetics of a composite electrode was alsoinvestigated by in situ X-ray diffraction (in situ XRD) incombination with galvanostatic and potentiostatic experiments. Noevidence of lithium concentration gradients could be observedfrom XRD data, even at the highest rate applied (i.e. ~6C), thusexcluding solid-phase diffusion and also phase-boundary movement,as described by Fick’s law, as the ratelimiting step.</p><p><b>Key words:</b>linear sweep voltammetry, electrochemicalimpedance spectroscopy, potential step, in situ X-raydiffraction, microelectrodes, electrode kinetics, LiMn2O4cathode, rechargeable lithium batteries</p>