Neste trabalho foi realizado um estudo sobre a associação entre características da madeira importantes na produção de polpa celulósica e o genótipo dos indivíduos de uma população de híbridos de Eucalyptus grandis × Eucalyptus urophylla aos quatro anos de idade. Em termos de características da madeira determinou-se a densidade básica, teor de lignina klason, extrativos totais e holocelulose. A genotipagem foi realizada utilizando 14 combinações entre o iniciador arbitrário TRAP2 e iniciadores fixos relacionados às características de interesse. 36 marcadores microssatélites também foram utilizados na genotipagem. A densidade básica bem como os teores dos componentes químicos da madeira encontrados estão dentro do esperado para espécies do gênero. O estudo de associação fenótipo-genótipo, detectou oito associações, sendo quatro delas entre marcadores TRAP e as quatro entre marcadores microssatélites. As associações significativas detectadas foram principalmente entre marcadores e densidade básica sendo as maiores associações com os marcadores TRAP2/COMT (210 pb) (26%) e E2010 (24%). Igualmente e, em segundo lugar, entre marcadores e teor de lignina e extrativos totais. O maior grau de associação significativo foi detectado entre o marcador TRAP2/HCT (190 pb) e o teor de lignina sendo a associação de 32 %. Não foi detectada associação entre marcadores e teor de holocelulose. Mais de uma marca foi relacionada com uma característica o que reforça teorias de controle genético exercido por mais de um gene. Também foi detectada associação entre uma marca e duas características diferentes sugerindo que um mesmo gene possa exercer o controle sobre mais de uma característica. O estudo mostrou portanto correlações entre as propriedades da madeira e associação, em diferentes níveis, entre essas e marcas genéticas. / It was studied in this work the association between wood characteristics that are important to the cellulosic pulp and paper production and the hybrid population individual genotype Eucalyptus grandis × Eucalyptus urophylla at the age of four years. The basic density, characteristic of mayor interest, was valuated using the maximum humidity content method. The amount of Klason lignin, total extract and holocellulose were obtained using conventional analysis methods. The genotyping was done using 14 combinations between the arbitrary primer TRAP2 and fixed primers related to the characteristics of interest. 36 microsatellite markers were also used during the genotyping process. The basic density and the wood chemical components amounts were found between the expected values for each genus. The study revealed that there are negative co-relationships between the wood chemical characteristics. The relationship between the holocellulose amount and the total extracts value is approximately 71% as the corelationship between the holocellulose amount and the lignin value is 55%. It was detected a positive relationship between the Klason lignin amount and the basic density. The phenotypegenotype association study detected eight associations, four of them being between TRAP markers and the other four between microsatellite markers. The significant associations detected were mainly between the markers and the basic density, especially the association with the markers TRAP2/COMT (210 bp) (26%) and E2010 (24%). Equally and in second place it stands the association between the markers and the lignin value and the total extracts. The mayor significant association degree was detected between the TRAP2/HCT marker (190 bp) and the lignin value, being it 32 %. It was not detected any relationship between the markers and the holocellulose amount. More than one mark was related to one characteristic which enhances genetic control theories carried by more than one gene. It was also detected an association between one mark and two different characteristics suggesting that one same gene can have control over more than one characteristic. The study revealed therefore co-relationships between wood properties and association in different levels between those and genetic marks.

Made available in DSpace on 2016-03-15T19:40:48Z (GMT). No. of bitstreams: 1 Yara Garzuzi.pdf: 551486 bytes, checksum: 44776cb6bcf0c1a4ffc2f15d4da4b0ab (MD5) Previous issue date: 2009-09-03 / Fundo Mackenzie de Pesquisa / There are few studies in Brazil that comprise the theme of behavioral phenotypes in people with genetic syndromes. The knowledge of behavioral patterns associated with such syndromes contributes to the planning of standardized therapeutic assessment, intervention and handling strategies, and for an improvement in assistance practices. This study presents three genetic syndromes, which have as their common behavioral phenotype the presence of mental retardation that is associated with neurobiological, clinical, behavioral, social and psychiatric patterns specific to each of them. To describe and compare the major behavior patterns of children and adolescents with Prader-Willi Syndrome (PWS), Williams-Beuren Syndrome (WBS) and Down Syndrome (DS). The sample consisted of 68 children and adolescents with diagnosis for the syndromes. From these subjects, 11 presented cytogenetic-molecular diagnosis for PWS, 10 presented clinical and/or cytogeneticmolecular diagnosis for WBS, and 47 presented clinical and/or cytogenetic-molecular diagnosis for DS. The Child Behavior Checklist for ages 1½ 5 (CBCL/1½ 5) and the Child Behavior Checklist for ages 6-18 (CBCL/6 18) were used for data collection. The major results of the comparison between groups showed that, with respect to behavior changes, the PWS group scored higher, followed by the WBS group and the DS group, respectively. The following main patterns were found: in PWS, Externalizing Problems, Social Problems, Thought Problems and Aggressive Behavior; in WBS, Social and Attention Problems; and in DS, Total Problems. Statistically significant differences were also observed between some of this response patterns when groups paired by sex and age were compared (PWS-DS and WBS-DS).The changes found mainly in groups with PWS and WBS interfere considerably with the social adjustment of these children and adolescents. If these changes are not treated, they may result in the development of risk factors for several psychiatric comorbidities tending to chronicity. Therefore, it is necessary to implement public health services for the care of behavioral changes and to help families to deal with these groups of children and adolescents. / No Brasil, são poucos os estudos que abrangem a temática dos fenótipos comportamentais em pessoas com síndromes genéticas. O conhecimento de padrões comportamentais associados a tais síndromes contribui para o planejamento de estratégias de avaliação, intervenção e manejo terapêutico padronizados, e para uma melhoria das práticas assistenciais. Este estudo apresenta três síndromes genéticas cujo fenótipo comportamental comum é a presença da deficiência mental que se associa a padrões neurobiológicos, clínicos, comportamentais, sociais e psiquiátricos específicos a cada uma delas. Descrever e comparar os principais padrões de comportamento de crianças e adolescentes com Síndrome de Prader-Willi (SPW), Síndrome de Williams-Beuren (SWB) e Síndrome de Down (SD). A amostra foi composta por 68 crianças e adolescentes com diagnóstico para as síndromes. Desses participantes, 11 apresentavam diagnóstico citogenético-molecular para a SPW, 10 apresentavam diagnóstico clínico e/ou citogenético-molecular para a SWB, e 47 apresentavam diagnóstico clínico e/ou citogenético-molecular para a SD. Para a coleta de dados, utilizaram-se o Inventário dos Comportamentos de Crianças de 1½ a 5 anos (CBCL/1½ 5) e o Inventário dos Comportamentos de Crianças e Adolescentes de 6 a 18 anos (CBCL/6 18). Os principais resultados da comparação entre os grupos mostraram que, em relação a alterações de comportamento, o grupo com SPW obteve as maiores pontuações, seguido pelo grupo com SWB e pelo grupo com SD, respectivamente. Os principais padrões encontrados foram: Na SPW, problemas externalizantes, problemas sociais, problemas de pensamento e comportamento agressivo; na SWB, problemas sociais e de atenção; e, na SD, problemas totais. Observaram-se, ainda, diferenças estatisticamente significativas entre alguns desses padrões de resposta quando se compararam os grupos pareados por sexo e idade (SPW-SD e SWB-SD). As alterações encontradas principalmente nos grupos com SPW e SWB interferem de maneira considerável na adaptação social dessas crianças e adolescentes. Se essas alterações não forem tratadas, poderão configurar o desenvolvimento de fatores de risco para diversas comorbidades psiquiátricas com tendência à cronicidade. Por isso, fazem-se necessários a implementação de serviços públicos de saúde para o cuidado das alterações comportamentais e o auxílio do manejo familiar desses grupos de crianças e adolescentes.

Introdução: A doença pulmonar obstrutiva crônica (DPOC) apresenta repercussões sistêmicas que contribuem negativamente para a evolução da doença e aumentam a mortalidade nestes indivíduos. O nível de atividade física e a força muscular periférica têm sido evidenciados como fatores de morbi-mortalidade em pacientes com DPOC, entretanto os fenótipos previamente descritos na literatura não incluem estes fatores como determinante dos fenótipos. Objetivo: Identificar fenótipos em indivíduos com DPOC considerando o nível de atividade física, a composição corporal e a disfunção muscular esquelética. Casuísticas e Métodos: Foram avaliados 190 indivíduos em relação à função pulmonar (espirometria), ao controle clínico da DPOC (CCQ), aos fatores de saúde relacionados à qualidade de vida (CRQ), ao nível de atividade física na vida diária (acelerômetro - Actigraph GT3X), à força dos músculos esqueléticos (isometria máxima) e à composição corporal (biompedância). Após 3, 6, 9 e 12 meses destas avaliações, os indivíduos foram questionados quanto à ocorrência de exacerbações e hospitalizações. Para a identificação dos fenótipos foi realizada análise de agrupamento de cluster. As comparações entre os fenótipos identificados foram realizadas por meio do teste de one-way ANOVA seguido do pos teste de Tukey para dados paramétricos e do teste de Kruskal-Wallis seguido do teste de Dunn para dados não paramétricos. A normalidade dos dados foi avaliada por meio do teste de Kolmogorov-Smirnov. Para comparação das variáveis categóricas foi utilizado o teste de qui-quadrado. O nível de significância foi ajustado para 5%. Resultados: Foram identificados 3 fenótipos (clusteres) distintos de acordo com a idade, atividade física, composição corporal, força muscular, qualidade de vida e controle clínico. O fenótipo 1 englobou indivíduos mais jovens, com pior controle clínico e maior número de comorbidades, os indivíduos deste grupo apresentaram maior frequência de exacerbação comparados aos fenótipos 2 e 3. Os indivíduos do fenótipo 3 apresentaram menores valores de atividade física, maior tempo em comportamento sedentário e maior frequência de hospitalização nos indivíduos que exacerbaram. Conclusão: O presente estudo demonstrou a existência de diferentes fenótipos em pacientes com DPOC em relação à atividade física. Estes resultados são relevantes para o manejo clínico de indivíduos com DPOC e para a escolha de estratégias para aumentar o nível de atividade física destes pacientes / Rationale: The chronic obstructive pulmonary disease (COPD) has systemic repercussions that contribute negatively to the evolution of the disease and increase mortality in these individuals. The level of physical activity and peripheral muscle strength have been evidenced as morbidity and mortality factors in individuals with COPD, however the phenotypes previously described in the literature do not include these factors as determinant of the phenotypes. Objective: To identify phenotypes in individuals with COPD according to their levels of physical activity in daily life, body composition and skeletal muscle force. Methods: We evaluated 190 individuals in relation to pulmonary function (spirometry), clinical control of COPD (CCQ), health factors related to quality of life (CRQ), physical activity in daily life (Actigraph GT3X), skeletal muscle force (maximal isometry) and body composition (bioimpedance). After 3, 6, 9 and 12 months of these evaluations, subjects were questioned about the occurrence of exacerbations and hospitalizations. Participants were classified using hierarchical cluster analysis. The comparisons between the identified phenotypes were performed using the ANOVA one-way test followed by Tukey\'s post test for parametric data and the Kruskal-Wallis test followed by the Dunn test for non-parametric data. The normality of the data was evaluated using the Kolmogorov-Smirnov test. The chi-square test was used to compare the categorical variables. The level of significance was adjusted to 5%. Results: Three distinct phenotypes (clusters) were identified according to age, physical activity, body composition, muscle strength, quality of life and clinical control. The individuals in phenotype 1 were younger, with worse clinical control, with more comorbidities and with higher frequency of exacerbation compared to phenotypes 2 and 3. Subjects of phenotype 3 had lower values of physical activity, sedentary status and greater frequency of hospitalization after exacerbations. Conclusions: The present study demonstrated the existence of different phenotypes in patients with COPD according to physical activity. These results are relevant for the clinical management of individuals with COPD and for the choice of strategies to increase the level of physical activity of these patients

Niemann-Pick tipo C (NPC) é uma doença de depósito lisossomal, ocasionada por alterações no tráfico de colesterol não esterificado, decorrente de alterações bialélicas nos genes NPC1 ou NPC2, ambos definindo uma doença autossômica recessiva, progressiva e irreversível, caracterizada por manifestações viscerais, neurológicas e psiquiátricas, não necessariamente combinadas. Com o propósito de descrever as características fenotípicas e genotípicas de pacientes com NPC, objetivou-se relatar dados demográficos, formas clínicas classificadas por idade, sinais e sintomas neurológicos e psiquiátricos, achados de ressonância magnética (RM) de encéfalo e ultrassonografia de abdome, assim como teste de filipin, mutações observadas e o tratamento com N-butyldeoxynojirimycin (Miglustat). De uma casuística de 12 pacientes atendidos entre 2000-2014, por revisão de prontuários, no Ambulatório de Neurogenética do Hospital das Clínicas da Faculdade de Medicina de Ribeirão Preto, havia 7 mulheres e 5 homens, idade média de 20 anos (entre 2 e 42), sendo dez pacientes da etnia branca e dois mulatos, procedentes de 3 estados brasileiros: São Paulo, Mato Grosso do Sul e Minas Gerais. As formas clínicas identificadas foram infantil, juvenil e adulto. A idade do primeiro sintoma neurológico ocorreu entre 1 e 27 anos (media 9,5). Dentre os achados viscerais, dois pacientes encontravam-se assintomáticos, os demais apresentaram icterícia prolongada/colestase, hepatomegalia e esplenomegalia. Todos os pacientes apresentaram em diferentes momentos da evolução manifestações neuropsiquiátricas, tais como: paralisia do olhar vertical, ataxia/quedas, epilepsia, mioclonias, distonia, disartria, disfagia, fraqueza muscular, espasticidade, declínio cognitivo/demência, sintomas psicóticos, atraso escolar, distúrbio de comportamento, cataplexia gelástica e hipotonia neonatal. A idade de diagnóstico variou de 0 a 41 anos, com uma média de 14,5 anos. O tempo entre a idade do primeiro sintoma neurológico e o diagnóstico da doença variou de 0 a 14 anos, tempo médio de 5,3 anos. O teste de Filipin demonstrou seis resultados positivos e seis variantes. A RM de encéfalo apresentou três diferentes tipos de alteração: atrofia cerebral em 6 casos, atrofia cerebelar e desmielinização em 7. A ultrassonografia de Abdome resultou em três alterações: hepatomegalia em 8, esplenomegalia em 10 e hepatoesplenomegalia em 8. O resultado do teste genético molecular em 11 pacientes evidenciou alterações no gene NPC1 e uma paciente não possuía o resultado. A mutação c.3104C>T foi a mais frequente, em oito pacientes; c.3548G>A, de significado incerto, em um paciente, e, as demais mutações encontradas: c.3493G>A, c.3019C>G. O tratamento com N-butyl deoxynojirimycin (Miglustat) foi realizado por todos os pacientes, o tempo entre o diagnóstico e o início da medicação variou de 0 a 9 anos, média de 2,9 anos. Concluímos que o registro da doença NPC deve ser feito através de uma coleta de dados detalhada e contínua, pois sua heterogeneidade fenotípica e genotípica sugerem um número subestimado de casos, não só por sua raridade, mas também pelo desconhecimento da doença, já que há poucos grupos estudados e publicados. O seu reconhecimento precoce, associado ao adequado manejo clínico, podem retardar a progressão implacável da doença e aumentar a expectativa de vida dos pacientes. / Niemann-Pick type C (NPC) is a lysosomal storage disease caused by abnormal unesterified cholesterol trafficking, resulting from biallelic changes in NPC1 or NPC2 genes, both defining an autosomal recessive progressive and irreversible disease characterized by visceral, neurological and psychiatric manifestations, not necessarily combined. In order to describe the phenotypic and genotypic characteristics of patients with NPC, this work aimed to report demographic data, clinical forms classified by age, neurological and psychiatric signs and symptoms, brain magnetic resonance imaging (MRI) and abdominal ultrasound findings, Filipin test, the gene mutations, and the treatment with N-butyldeoxynojirimycin (Miglustat). A series of 12 patients were studied, treated between 2000-2014, by review of medical records of the Neurogenetics Clinic at the Hospital of Clinics, Ribeirão Preto Medical School, Brazil. There were 7 women and 5 men, mean age 20 years (from 2 to 42); 10 caucasian and 2 mulattos, coming from three Brazilian states: São Paulo, Mato Grosso do Sul and Minas Gerais. Infantile, Juvenile and adult clinical forms were identified. The age of the first neurological or psichiatric symptoms occurred between 1 and 27 years (mean 9.5). Among the visceral findings, two patients were asymptomatic, and the others had prolonged jaundice / cholestasis, hepatomegaly and splenomegaly. All patients had at different times of evolution symptoms, such as paralysis of vertical gaze, ataxia/falls, epilepsy, myoclonus, dystonia, dysarthria, dysphagia, muscle weakness, spasticity, cognitive decline/dementia, psychotic symptoms, school delay, disorders behavior, gelastic cataplexy and neonatal hypotonia. Age at diagnosis ranged from 0 to 41 years, with a mean of 14.5 years. The interval between the first signs of the disease and the onset of treatment ranged from zero to 14 years, with an average of 5.3 years. Filipin test resulted six positive and six variant form. The MRI scans showed three different types of changes: brain atrophy in 6 cases, cerebellar atrophy in 7 and demyelination in 7. Abdominal ultrasound revealed 8 patients with hepatomegaly, 10 with splenomegaly and 8 hepatosplenomegaly. The results of the molecular genetic testing on 11 patients showed changes in NPC1 gene and a patient did not have the result. Mutation c.3104C>T was more frequent in eight patients; c.3548G>A, of uncertain significance in a patient, and other mutations found: c.3493G>A and c.3019C>G. Treatment with N-butyl deoxynojirimycin (Miglustat) was carried by all patients; the time between diagnosis and beginning of the treatment ranged from 0 to 9, with an average of 2.9 years. We conclude that NPC disease registry should be done through a collection of detailed and continuous data because their phenotypic and genotypic heterogeneity suggest an underestimated number of cases, not only for its rarity but also by unawareness about the disease, and the fact that there are few published studies. The early recognition, coupled with appropriate clinical management, may slow the progression of the disease and increase life expectancy of patients.

Orientador: Carmen Silvia Bertuzzo / Tese (doutorado) - Universidade Estadual de Campinas, Faculdade de Ciências Médicas / Made available in DSpace on 2018-08-23T02:22:32Z (GMT). No. of bitstreams: 1 Furgeri_DanielaTenorio_D.pdf: 7382335 bytes, checksum: edfcfca14ac645a69fd4e8e2d2777246 (MD5) Previous issue date: 2013 / Resumo: A fibrose cística (FC) é uma doença autossômica recessiva com características de doença complexa. Complicações clínicas parece ser fator decisivo para o prognóstico dos pacientes. Os polimorfismos nos genes ADRA2A e TCF7L2 são importantes para elucidar parte da variabilidade encontrada nas características clínicas de doenças inflamatórias, incluindo a FC, que tem a Diabetes Mellitus como uma importante co-morbidade. Os objetivos deste estudo foram determinar a frequência do polimorfismo rs12255372 no gene TCF7L2 e sua associação com Diabetes Mellitus em pacientes com fibrose cística, e investigar a associação de 27 variáveis clínicas da FC com os polimorfismos rs553668 e rs10885122 do gene ADRA2A. Em nosso estudo, 145 pacientes foram avaliados em relação ao genótipo do polimorfismo rs12255372 no gene TCF7L2 e 176 pacientes foram avaliados em relação à associação dos polimorfismos rs553668 e rs10885122 no gene ADRA2A com 27 variáveis clínicas da FC. Todos os pacientes em atendimento no Ambulatório de Pediatria da Faculdade de Ciências Médicas da UNICAMP foram confirmados como tendo fibrose cística por dois testes de suor alterados (valor de sódio e de cloro superior a 60 mmol / L) e por análise de diferencial do epitélio da membrana do intestino através da dosagem de CFTR pela câmara Ussing. A identificação das mutações do gene CFTR foi realizada no laboratório de Genética Molecular da FCM/Unicamp. O rastreio do polimorfismo rs12255372 foi feito através da técnica de PCR associada à digestão enzimática específica. O rastreio dos polimorfismos rs553668 e rs10885122 no gene ADRA2A foi feito por PCR ARMS. Uma comparação genotípica foi realizada com as 27 variáveis clínicas, da FC considerando as mutações do gene CFTR. Encontramos associações clínicas, sem considerar as mutações no gene CFTR, com as variáveis categóricas: raça [para o polimorfismo rs553668 (p = 0,002), grupo haplotípico (p = 0,014)], íleo Meconial [para o polimorfismo rs553668 (p = 0,030) Quando consideradas as duas mutações no gene CFTR, encontramos associações com as variáveis íleo meconial (p = 0,0012) e IMC [para o polimorfismo rs553668 (p = 0,014)]. A associação com dados numéricos, sem considerar as mutações no gene CFTR, foi positiva para a idade ao diagnóstico [para o polimorfismo rs553668 (p = 0,022)]. Considerando as duas mutações no gene CFTR, a associação com dados numéricos foi positiva para o Escore de Bhalla [para o polimorfismo rs553668 (p = 0,014)], Escore de Shwachman-Kulczycki [para o polimorfismo rs553668 (p = 0,008) e haplótipos (p = 0,050)]. Os polimorfismos rs553668 e rs10885122 no gene ADRA2A parecem ser moduladores da gravidade da FC em nossa amostra. Em nossa amostra, não houve associação entre o polimorfismo rs12255372 no gene TCF7L2 e a Diabetes Mellitus / Abstract: Cystic fibrosis (CF) is an autosomal recessive disease with characteristics of complex disease. Clinical complications appear to be a decisive factor in the prognosis of patients. The ADRA2A and TCF7L2 gene polymorphisms are important to elucidate part of the variability encountered in clinical characteristics in inflammatory diseases, including CF, which has diabetes-associated as an important comorbidity. The aims of this study ware to determine the frequency of polymorphism rs12255372 in the TCF7L2 gene and its association with Diabetes Mellitus in Cystic Fibrosis patients and to investigate the association of 27 CF clinical variables with ADRA2A polymorphisms. In our study, 145 patients were evaluated in relation to the genotype of the rs12255372 polymorphism in the TCF7L2 gene. 176 patients were evaluated in relation to associate rs553668 and rs10885122 polymorphisms in the ADRA2A gene with 27 CF clinical variables. All patients in attendance at the Pediatric Clinic at the Faculty of Medical Sciences, UNICAMP, were confirmed as having cystic fibrosis by two altered sweat tests (sodium and chlorine value greater than 60 mmol/L) and by analysis of differential membrane epithelium of the intestine by the dosage of active CFTR through the Ussing chamber. The identification of CFTR gene mutations was performed in the laboratory of Molecular Genetics, FCM/Unicamp. The rs12255372 polymorphism was screening by PCR method associated with specific enzymatic digestion. The rs553668 and rs10885122 polymorphisms in ADRA2A gene were screening by ARMS-PCR. A genotypic comparison was performed with 27 CF clinical variables, considering CFTR mutations. We found clinical associations, without considering the mutations in the CFTR gene, with categorical variables: race [for polymorphism rs553668 (p = 0.002), haplotype group (p = 0.014)], meconium ileus [for polymorphism rs553668 (p = 0.030). Considering the two mutations in the CFTR gene, we find associations with categorical variables meconium ileus (p = 0.0012) and BMI [for polymorphism rs553668 (p = 0.014)]. The association with numerical data, without considering the mutations in the CFTR gene, was positive for age at diagnosis [for polymorphism rs553668 (p = 0.022)]. Considering the two mutations in the CFTR gene, the association with numerical data was positive for Bhalla score [for polymorphism rs553668 (p = 0.014)], Shwachman-Kulczycki score [for polymorphism rs553668 (p = 0.008) and haplotypes (p = 0.050)]. Polymorphisms rs553668 and rs10885122 in ADRA2A gene appear to be modulators of CF severity in our sample. In our sample, there was no association between the polymorphism rs12255372 in the TCF7L2 gene and Diabetes Mellitus / Doutorado / Clinica Medica / Doutora em Clínica Médica

La fibrose hépatique est un problème de santé publique. Cette pathologie est caractérisée par une accumulation excessive de matrice extracellulaire, composée principalement de collagène, augmentant la rigidité du foie. Environ 90% des hépatocarcinomes se développent sur un foie fibrotique / cirrhotique, laissant présager une relation entre la rigidité tissulaire et le développement tumoral. Pour étudier le rôle des forces exercées par la matrice extracellulaire sur le phénotype des cellules hépatiques, nous avons développé un modèle de culture 3D de cellules hépatiques dans des gels de collagène de rigidités variables. Dans ces conditions, les cellules hépatiques présentent une forte prolifération et un maintien de la différenciation dans les matrices les plus rigides. En parallèle, les cellules hépatiques transformées peuvent modifier la matrice de collagène pour former des signatures de collagène TACS (Tumor Associated Collagen Signatures). Une analyse des voies de signalisation impliquées dans la formation des TACS 3 nous a permis de déterminer 2 voies indispensables pour ces mécanismes: MEK/ERK et MLCK. Le bon maintien des fonctions différenciées et de biotransformation des cellules hépatiques font des cultures 3D en gel de collagène un excellent modèle pour des applications en biotechnologie. Nous avons également développé une technique de quantification standardisée et automatisée du collagène, dans un modèle murin de fibrose hépatique, par utilisation de la microscopie SHG, qui permet de détecter de faibles variations de quantité de collagène. Cette technique permet également de caractériser qualitativement, après analyse d'images, le collagène et de renforcer la discrimination entre les différents stades fibrotiques. La caractérisation des cross-links de collagène, par cette approche, est actuellement en cours d'étude et permettrait d'appréhender les capacités de réversion. / Liver fibrosis is a real public health problem. This pathology is characterized by an excessive accumulation of extracellular matrix, mainly composed of collagen, increasing liver rigidity. Approximately 90% of hepatocellular carcinomas develop from a fibrotic/cirrhotic liver, suggesting a relationship between tissue rigidity and tumor development. To investigate the role of stiffness on the hepatic phenotype, we have developed a 3D culture model of collagen gels of varying stiffness. Our results show a better survival, an increase of proliferation and differentiation of liver cells in rigid matrices. In addition, the cells are able to modify the collagen matrix and to form collagen signatures TACS (Tumor Associated Collagen Signatures). An analysis of the signaling pathways involved in the formation of TACS 3 allowed us to determine that 2 pathways are important for these mechanisms: MEK/ERK and MLCK. The high level of differentiated functions and biotransformation of the hepatic cells make 3D collagen cultures an excellent model for applications in biotechnology. Using the SHG microscopy, we have also developed a standardized and automated quantification of collagen to detect small amount of collagen in a mouse liver fibrosis model. This technique allows us to characterize qualitatively the collagen and to strengthen the discrimination between fibrotic scores. The characterization of the collagen cross-links by this approach is under study and would allow to study the reversion capacity.

Le syndrome de Bardet-Biedl (BBS) est une ciliopathie syndromique associant une rétinopathie pigmentaire, une polydactylie post-axiale, une obésité, un hypogonadisme, des anomalies rénales et des troubles des apprentissages. Le cil primaire est présent à la surface de la quasi totalité des cellules de l’organisme et joue un rôle d’antenne cellulaire captant les signaux extérieurs pour les transmettre à la cellule. A ce jour 21 gènes BBS ont été identifiés codant des protéines ayant une fonction ciliaire. Au cours de ce travail, nous avons identifié 3 nouveaux gènes BBS (SDCCAG8/BBS16, LZTFL1/BBS17, BBIP1/BBS18) et confirmé l’implication de IFT172/BBS20. Nous avons également établi des corrélations génotype-phénotype : absence de polydactylie et insuffisance rénale associées aux mutations dans BBS16 ; polydactylie mésoaxiale et atteinte rénale associées aux mutations dans BBS17 ; possible association d’une polydactylie préaxiale aux mutations dans BBS20. Enfin, nous décrivons sur le plan clinique et moléculaire la plus grande cohorte de patients BBS à partir d’une base de données clinico-biologique mise en place au cours de ce travail. / Bardet-Biedl syndrome (BBS) is a syndromic ciliopathy associating with retinitis pigmentosa, postaxial polydactyly, obesity, hypogonadism, renal anomalies and learning difficulties. The primary cilium is antenna-like structure at the surface of the cell. 21 BBS genes are identified and the corresponding proteins are related to primary cilium structure and function. In this study, we identified 3 new BBS genes (SDCCAG8/BBS16, LZTFL1/BBS17, BBIP1/BBS18) and we confirmed the implication of IFT172/BBS20 in this syndrome. We also established strong genotype-phenotype correlations: absence of polydactyly and early renal failure in SDCCAG8/BBS16 patients; mesoaxial polydactyly and early renal failure in LZTFL1/BBS17 patients; possible preaxial polydactyly in IFT172/BBS20 patients. Finally, we reported the molecular and clinical description of the largest BBS cohort thanks to the clinical and biological database created in the Laboratory.

La sclérose Latérale Amyotrophique (SLA) est une maladie neuro-dégénérative rare. Il n’existe aucune donnée d’incidence française en population générale. Le profil phénotypique des patients français atteints de SLA, n’a pas été étudié. En outre, aucun facteur de risque confirmé n’existe pour cette pathologie bien que l’activité physique (AP) soit souvent rapportée comme possible facteur étiologique. Dans
 ce
 contexte, 
 pour améliorer les connaissances dans ces domaines, nos
 travaux
 ont
 consisté
 en trois études : (1) une étude sur l’incidence de la SLA dans la région du Limousin sur la base de données issues du premier registre français de SLA, (2) une étude des phénotypes des patients issus de 11 centres SLA français et (3) une revue de littérature des études épidémiologiques originales sur le lien entre PA et SLA. Nos travaux ont mis en évidence une incidence brute et standardisée sur la population européenne de 2010, élevée : 3,19/100 000 personnes-année (P-A) et 2,58/100 000 P-A respectivement. Concernant les aspects phénotypiques, nos travaux ont identifié huit phénotypes de SLA : (1) bulbaire, (2) spinal cervical, (3) spinal lombaire (4) flail leg, (5) flail arm, (6) respiratoire, (7) SLA-DFT et (8) Tête tombante (« Dropped head »). Nous avons conclu notre revue de littérature que l’AP en elle-même n’est probablement pas un facteur de risque de SLA. Comme perspective, (i) nous espérons étendre le registre de la SLA à d’autres régions françaises. En outre (ii) il serait très important de confirmer nos travaux sur les phénotypes sur un échantillon plus représentative Enfin, (iii) concernant le lien entre AP et SLA, d’autres travaux de niveau de preuve élevé sont souhaitables pour asseoir le résultat synthétique que nous avons apporté. / Amyotrophic Lateral Sclerosis (ALS) is a rare neurodegenerative disease. Currently in France, there is no population-based incidence data. The phenotypic profile of French patients with ALS, has not been studied. Lastly, no risk factors are confirmed for this pathology. In this context, to improve knowledge in these fields, our work consisted of three studies: (1) a study on the incidence of ALS in the Limousin region based on the database from the first French ALS register (2) a study of the phenotypes of patients from 11 French ALS centers and (3) a literature review of original epidemiological studies focusing on physical activity (PA) and ALS risk. Our work has highlighted a high crude and standardized incidence (on Europe population): 3.19 / 100 000 person-years (PY) and 2.58 / 100,000 PY respectively. Regarding phenotypic aspects, our work identified eight ALS phenotypes: (1) bulbar, (2) cervical spinal (3) lumbar spinal (4) flail leg, (5) flail arm, (6) respiratory, (7) ALS-FTD and (8) dropped head. We demonstrated that the PA itself is probably not a risk factor for ALS. As a first perspective we hope to expand the ALS Register to other French regions. In a second perspective, it would be very important to confirm our work on phenotypes on a larger and representative sample of ALS patients. Finally, regarding the relationship between PA and ALS, other work of high level of evidence are desirable to confirm the synthetic result we brought in this thesis work.

Les micro-organismes ont la capacité de s'adapter rapidement aux différentes contraintes environnementales ou métaboliques, mais le mécanisme détaillé et les principes de cette réponse adaptative en micro-organisme sont mal compris aux niveaux génétiques, biochimiques et métaboliques. Ici, une souche de E. coli a évolué avec un titre élevé de 1,3-propanediol a été sélectionné et cette souche a été analysée comme un exemple pour la découverte de ce processus d'évolution adaptative. La technologie de séquençage comparatif du génome entier a été utilisée pour identifier les mutations génétiques dans le chromosome et le plasmide portant les gènes codant pour la voie de production de 1,3-propanediol a également été séquencée. Quatre mutations ont été trouvées dans le chromosome et ils sont Ipd, glpR, dhak, nagD - promoteur. Une mutation a été trouvée dans le gène GGP2, qui est situé dans le plasmide. Toutes les mutations ont été en outre caractérisées par analyse génétique et inverse biochimique et leur influence dans le réseau métabolique sont aussi découverts. Nous avons démontré que tous les cinq mutations individuellement peuvent augmenter le taux de croissance et la production de 1,3 -propanediol. Selon le profil de fermentation de la souche évolué, l’accumulation d'acétate entravé la croissance de la souche et de l'augmentation de 1,3-propanediol titre. Pour optimiser la production de 1,3- propanediol, un nouveau catalyseur a été développé pour la co-production de 1,3-propanediol avec de l'acétone au lieu de l'acétate, parce que l'acétone a une plus grande valeur et est moins toxique que l'acétate. Les deux voies de l'acétate, dépendantes et indépendantes, ont été testées pour la co-production de 1,3-propanediol et l'acétone dans des conditions anaérobies. Pour la voie de l'acétate dépendante, en modifiant le niveau d'expression de l'acétate kinase cette voie était active dans des conditions anaérobies dans E. coli. Pour la voie de l'acétate indépendant, une courte chaîne acyl-CoA thioestérase candidat a été sélectionné et caractérisé, mais son activité doit encore être améliorée en utilisant l'évolution adaptative ou la sélection in vitro. Pour l'évolution adaptative, le réseau métabolique était rationnel conçu pour forcer de flux de carbone à la production d'acétone, ce qui va augmenter la possibilité et l'efficacité de la sélection d'une thioestérase avec une affinité et une activité élevée à l'acétoacétyl -CoA au cours du processus d’évolution adaptative. Pour la sélection in vitro, un système de bio-sensor a été développé afin de simplifier la méthode de sélection d'une thioestérase mutant avec une grande capacité de catalyser l'acétoacétyl -CoA in vitro. / Microorganisms have the ability to adapt rapidly to different environmental or metabolic constraints, but the detailed mechanism and the principles of this adaptive response in microorganism is poorly understood at the genetic, biochemical, and metabolic levels. Here, the glycerol pathway from S. cerevisiae and the B12-independent C. butyricum 1,3-PD pathways were introduced into E. coli and its central metabolic network was restructured to couple the production of 1.3-propanediol to the growth of the microorganism. This strain was grown in conditions favouring adaptive evolution for around 1000 hours. An evolved population was selected under optimal conditions in mineral medium. Comparing with the original strain, it can convert glucose to 1.3-PD at high molar yield (94 %) and its productivity was also significantly increased. Comparative whole genome sequencing technology was used to identify the genetic mutations and five mutating genes lpd, glpR, dhaK, nagD and GPP2 were discovered. All the mutations were further analysed and characterized to disclose their changes after the evolution and to elucidate their influence in the whole metabolic engineering network. To optimize the production of 1.3-PD further, we plan to convert the co-production of acetate to acetone. Indeed, the 1.3 propanediol production was hampered by the acetate inhibition on growth, and acetone is a valuable product which is less toxic thyan acetate. Both the acetate-dependent and independent pathways were tested to produce acetone and some modifications to adapt the global metabolic network were performed. Several strategies were applied to ameliorate the performance of acetone production. Finally, the bottleneck of the acetate-dependent acetone pathway under anaerobic condition was indentify and the acetate-independent acetone pathway still need to be improve with the selection of an evolved or mutant enzyme with high short-chain acyl-CoA thioesterase activity.

Le déficit en 21-hydroxylase est la cause la plus fréquente des hyperplasies congénitales des surrénales. Un grand nombre de nouvelles mutations a été trouvé dans le laboratoire qui centralise la plus grande cohorte de familles au niveau international et l’évaluation de leur sévérité était primordiale pour optimiser la prise en charge des patients (thérapeutique, conseil génétique). Grâce à l’analyse approfondie du phénotype des patients et au développement d’études fonctionnelles (in vitro, in silico), nous avons pu évaluer le retentissement de la plupart des 85 nouvelles mutations ; nous avons choisi comme témoins des mutations fréquentes de sévérité connue et nous avons comparé nos résultats avec ceux de la littérature. L’analyse plus approfondie d’une quinzaine de mutations rares a confirmé l’existence de bonnes corrélations phénotype-génotype comme ceci est décrit dans cette pathologie. Par ailleurs, les études structurales que nous avons développées ont permis d’améliorer les connaissances sur les relations structure-fonction des cytochromes P450 en général. / Steroid 21-hydroxylase deficiency is the most common enzymatic defect causing congenita ladrenal hyperplasia. A large number of new mutations has been detected in the laboratory, which centralizes the biggest cohort of families in the world, and evaluation of their severity wasessential to optimize the care of the patients (treatment, genetic counselling). Thanks to detailed analysis of the patients phenotype and to the development of functional studies (in vitro, in silico), we were able to evaluate the severity of most of the 85 novel mutations; we decided touse as controls frequent known mutations and to compare our results with those of literature. Themore detailed analysis of about fifteen rare mutations confirmed the existence of goodcorrelations phenotype-genotype as this is described in this pathology. Moreover, the structural studies we developed led to improve the knowledge on structure-function relationship of theP450 cytochromes family.