Made available in DSpace on 2017-07-10T17:48:10Z (GMT). No. of bitstreams: 1 Andreia Garcia Wentz.pdf: 1194628 bytes, checksum: ab1fd705836544ee5b8b69c7a5a49595 (MD5) Previous issue date: 2016-03-07 / The present study aimed to compare three methods of conservation (no added preservative, azidiol and bronopol), conservation of raw milk for total bacteria count analysis (TBC) for the standard counting method plating, chemical composition (fat, protein, lactose, total solids and fat solids), pH and freezing of milk. The research also aimed to study the influence of the storage period (days), temperature (cooled and uncooled) and the initial microbiological quality of raw milk samples. It was used a randomized block design with factorial arrangement of 3 (methods) x 2 (temperature) x 5 (times). The TBC was influenced by the preservative, since after seven days of storage the sample without preservative had greater TBC. In the unrefrigerated samples with bronopol there was a gradual reduction of TBC. It was observed that the samples preserved with azidiol, regardless of storage temperature, TBC reduced over time. The temperature affected the fat content (P <0.001). The protein, lactose, solids and milk medium density were influenced by the type of preservative and storage days (P <0.001). The pH was influenced by the type of preservative and the storage days (P <0.001). For TBC analysis, the use of azidiol, independent of refrigeration or storage, is the most appropriate method to maintain the original characteristics of the product. From the first day of storage of the samples, there was an increase of the average levels of protein, lactose and degreased solids in relation to the quantified on the collection day. On the other hand, the TBC was changed isolated by the initial TBC, storage temperature and storage days (P <0.001). There was an increase of TBC according to the days of storage, since until the first day of storage values increased already from the second day of storage TBC started to reduce. In fat content, there was only initial TBC effect and storage temperature (P <0.001). In the protein percentage there was the effect of days of storage, the protein increased until the first day of storage, where it stabilized until 7 days of storage. Lactose was amended by initial TBC and the storage days (P <0.001), lactose increased until the first day of storage, which stabilized until the seventh day. The total solids (TS) content was amended by initial TBC, temperature and storage days (P <0.001), samples with high TBC showed higher initial TS levels. The SD content was changed only by the initial TBC and the storage days (P <0.001). The pH was amended by initial TBC, temperature and days of storage. For TBC analysis, using azidiol preservative is dependent on the use of refrigeration during storage to maintain more stable microbiological characteristics over seven days of storage. For analysis of physical and chemical composition, from the first day of sample storage, there was an increase of protein, lactose and fat solids of milk, compared to levels observed when quantified in the same day of collection of milk / O presente estudo foi realizado objetivando comparar três métodos de conservação (sem adição de conservante, azidiol e bronopol), na conservação de leite cru destinado a análise de contagem bactéria total (CBT) pelo método de contagem padrão em placas, composição centesimal (gordura, proteína, lactose, sólidos totais e sólidos desengordurados), pH e do ponto de congelamento do leite. O trabalho também objetivou estudar a influência do período de armazenamento (dias), temperatura (refrigerado e não refrigerado) e a qualidade microbiológica inicial de amostras de leite cru. Foi utilizado delineamento em blocos casualizados com arranjo fatorial de 3 (métodos) x 2 (temperaturas) x 5 (tempos). A CBT foi influenciada pelo conservante, pois aos sete dias de armazenamento a amostra sem conservante apresentou maior CBT. Nas amostras com bronopol sem refrigeração houve redução gradual de CBT. Observou-se que as amostras conservadas com azidiol, independente da temperatura de armazenagem, reduziram a CBT ao longo do tempo. A temperatura influenciou o teor de gordura (P<0,001. Os teores de proteína, lactose, sólidos desengordurados e densidade média do leite foram influenciados pelo tipo de conservante e dias de armazenamento (P<0,001). O pH foi influenciado pelo tipo de conservante e pelos dias de armazenamento (P<0,001). Para análises de CBT, o uso de azidiol, independente de refrigeração ou armazenagem, é o método mais adequado para manter as características originais do produto. A partir do primeiro dia de armazenamento das amostras ocorre aumento dos teores médios de proteína, lactose e sólidos desengordurados em relação aos quantificados no dia da coleta. Por outro lado, a CBT foi alterada de forma isolada pela CBT inicial, temperatura de armazenamento e dias de armazenagem (P<0,001). Houve aumento da CBT de acordo com os dias de armazenamento, uma vez que até o primeiro dia de armazenamento os valores aumentaram, já a partir do segundo dia de armazenamento a CBT começou a reduzir. Nos teores de gordura, houve apenas efeito de CBT inicial e temperatura de armazenamento (P<0,001). Nos percentuais de proteína houve efeito de dias de armazenamento, a proteína aumentou até o primeiro dia de armazenamento, onde estabilizou até 7 dias de armazenamento. Lactose foi alterada pela CBT inicial e pelos dias de armazenamento (P<0,001), teor de lactose aumentou até o primeiro dia de armazenamento, onde estabilizou até o sétimo dia. O teor de ST foi alterado pela CBT inicial, temperatura e dias de armazenamento (P<0,001), amostras com alta CBT inicial apresentaram maiores teores de ST. O teor de SD foi alterado apenas pela CBT inicial e pelos dias de armazenamento (P<0,001). O pH foi alterado pela CBT inicial, temperatura e dias de armazenamento. Para análise de CBT, o uso de azidiol como conservante é dependente do uso de refrigeração durante a armazenagem para manter as características microbiológicas mais estáveis ao longo de sete dias de armazenamento. Para análises de composição físico-química, a partir do primeiro dia de armazenamento das amostras, ocorreu aumento dos teores de proteína, lactose e sólidos desengordurados do leite, em relação aos teores observados quando quantificados no mesmo dia da coleta do leite

Esse estudo foi realizado de maneira prospectiva e randomizada com o objetivo de comparar duas técnicas de vasectomia. Foram avaliados 644 pacientes. Na técnica sem bisturi foram utilizadas duas pinças específicas. O tempo médio da técnica sem bisturi foi de 20,95 minutos e da convencional 22,95. Infecção de ferida operatória e epididimites foram menores na técnica sem bisturi. Não houve diferença entre as técnicas nas complicações intra-operatórias e pós-operatórias. Dez pacientes apresentaram espermatozóides vivos no espermograma de controle. A técnica sem bisturi apresenta um menor tempo cirúrgico e um menor índice de infecção que a técnica convencional. O índice de falha foi semelhante em ambas as técnicas / This study was carried out with objective of comparison two techiniques of vasectomy. Six hundred and fourteen four patients were assessed. For the no-scalpel technique, two specific clamps were used. The operating time for the no scalpel technique was less than for the conventional technique. There was a smaller percentage of infection of the operative wound and epididymitis in the no scalpel technique. There was no difference between the techniques with respect to complications during the operation and later complications. The no scalpel technique requires less time in surgery and has a lower infection rate than the conventional technique. The failure rate was similar for both techniques

Os objetivos gerais deste estudo foram avaliar o efeito suplementação de zinco (Zn), cobre (Cu) e selênio (Se) orgânicos para vacas leiteiras e os seus efeitos sobre a qualidade do leite, saúde da glândula mamária e consumo de alimentos. Os objetivos específicos foram avaliar: a contagem de células somáticas (CCS), a prevalência de mastite clínica e subclínica,a produção e composição de leite nos 80 primeiros dias de lactação; monitorar a atividade enzimática de superóxido dismutase (CuZnSOD), glutationa peroxidase (GSH-Px) e ceruloplasmina (CP); o consumo de alimentos; a concentração plasmática de Zn, Cu e Se; e as variações de peso e escore dos animais. Dezenove vacas leiteiras, com prenhez confirmada, foram selecionadas por peso, escore de condição corporal (ECC), número de lactações e produção de leite da lactação anterior, e distribuídas ao acaso em dois grupos para receber fontes de Zn, Cu e Se orgânica (n=9) ou inorgânica (n=10). As dietas foram formuladas para suprir os requerimentos nutricionais dos animais dos 60 dias antes da data prevista do parto aos 80 dias de lactação. Amostras dos alimentos fornecidos e das sobras foram coletadas diariamente para posterior análise de composição. O leite foi coletado semanalmente a partir da 3ª semana de lactação para determinação da composição e CCS, e nos dias 1 e 7 de lactação, e quando diagnosticados casos clínicos de mastite, para cultura microbiológica. Amostras de sangue foram coletadas aos -60, -21, 1, 21, 40 e 80 dias do período experimental para análises da concentração de CuZnSOD, GSH-Px e CP. Para determinação das concentrações plasmáticas de Zn, Cu e Se amostras de sangue foram coletas aos 60 dias antes da data prevista de parto, e no 1º, 40º e 80º dias de lactação. Avaliações do escore de condição corporal (ECC) e do peso corporal (PC) foram realizadas no início e final do experimento, no parto, e uma vez por semana durante todo o período experimental. A incidência (novos casos)e o total de casos de mastite subclínica foi menor para o grupo de vacas alimentadas com fontes orgânicas de Zn, Cu e Se em comparação com os animais que receberam fontes inorgânicas. A CCS durante os primeiros 80 dias de lactação foi menor (P = 0,056) para o grupo alimentado com Zn, Cu e Se orgânicos. Não foram observados efeitos de fontes orgânicas de Zn, Cu e Se sobre as concentrações de CuZnSOD , GSH-Px e CP, Zn, Cu e Se plasmáticos, produção e composição de leite, consumo de nutrientes, ECC, mudança de ECC e PC. Foi observado efeito (P=0,024) da fonte sobre a mudança de PC. / The general objectives of this study were to evaluate the effect organic zinc (Zn), copper (Cu) and selenium (Se) supplementationto dairy cows on milk quality, mammary gland health and feed intake. The specific objectives were to evaluate: the somatic cell count (SCC), clinical and subclinical mastitis prevalence, milk production and composition during the first 80 days of lactation; the superoxide dismutase (CuZnSOD), glutathione peroxidase (GSH-Px) and ceruloplasmin (CP) enzyme activity; the nutrients intake; Zn, Cu and Se plasmatic concentrations; changes in weight and body condition score. Nineteen dairy cows, with confirmed pregnancy, were selected by body weight (BW), body condition score (BCS), number of lactation, and milk yield in previous lactation, and randomly distributed among two groups to receive organic (n=9) or inorganic (n=10) sources of Zn, Cu and Se. The diets were formulated to meet the nutritional requirements of animals from 60 days before the expected date of calving up to 80 days of lactation. Every day, food samples and leftovers were collected for composition analysis. Milk samples was collected weekly after 15 days of lactation to determine the composition and CCS, on days 1 and 7 of lactation, and when a mastitis clinical case was diagnosed for microbiological culture. Blood samples were collected on -60, -21, 1, 21, 40 and 80 days of the experimental period for CuZnSOD, GSH-Px, and CP analysis. For plasma concentrations of Zn, Cu and Se blood samples were collected at 60 days before calving, and at 1st, 40th and 80th days of lactation. Assessments of body condition score (BCS) and body weight (BW) were performed at the beginning and at the end of the experiment, the day of calving, and once a week throughout the experimental period. The incidence (new cases) and total number of subclinical mastitis cases was lower for the group of cows fed organic Zn, Cu and Se in comparison with animals that received the inorganic sources. The SCC during the first 80 days of lactation was lower (P = 0,056) for the group fed organic Zn, Cu and Se. There were no effects of Zn, Cu and Se organic supply on concentrations of CuZnSOD, GSH-Px and CP, Zn, Cu and Se plasma, production and composition of milk, consumption of nutrients, BW, BCS and changes on BCS. It was observed effect of source on BW changes (P=0,024).

Submitted by Geandra Rodrigues (geandrar@gmail.com) on 2018-08-23T19:32:17Z No. of bitstreams: 1 naiaraaparecidarodriguesdeoliveira.pdf: 913286 bytes, checksum: a8b96b3b7d78237e6a66fbd73d141644 (MD5) / Approved for entry into archive by Adriana Oliveira (adriana.oliveira@ufjf.edu.br) on 2018-08-28T12:27:07Z (GMT) No. of bitstreams: 1 naiaraaparecidarodriguesdeoliveira.pdf: 913286 bytes, checksum: a8b96b3b7d78237e6a66fbd73d141644 (MD5) / Made available in DSpace on 2018-08-28T12:27:07Z (GMT). No. of bitstreams: 1 naiaraaparecidarodriguesdeoliveira.pdf: 913286 bytes, checksum: a8b96b3b7d78237e6a66fbd73d141644 (MD5) Previous issue date: 2018-02-28 / A mastite está entre as doenças do gado leiteiro que mais causam prejuízos em todo mundo. Entre os agentes causadores estão os patógenos de origem contagiosa Staphylococcus aureus e Streptococcus agalactiae que mais contribuem para o aumento da Contagem de Células Somáticas (CCS) em rebanhos infectados.Desde a implantação da Instrução Normativa 51 ( IN 51/2002) do Ministério da Agriculutura Pecuária e Abastecimento(MAPA) em 2005, pouco se avançou em melhorias no parâmetro CCS dos rebanhos brasileiros, fazendo-se necessário o levantamento da situação das regiões a fim de traçar estratégias específicas para o controle da mastite e atendimento aos requisitos da legislação. O objetivo do presente estudo foi estabelecer uma classificação baseada em risco (dados probabilísticos) (risco) para presença de S. aureus e S. agalactiae em rebanhos bovinos leiteiros localizados Zona da Mata do Estado de Minas Gerais e vinculados a uma cooperativa. O trabalho foi realizado utilizando a população de bovinos leiteiros vinculados à Cooperativa dos Produtores de Leite de Leopoldina de Responsabilidade Ltda (LAC). A avaliação da dependência espacial entre as coordenadas geográficas dos rebanhos e a média geométrica anual da contagem de células somáticas foi realizada por meio de semivariogramas e os mapas de isolinhas por meio do método de Krigagem. Amostras para análise de CCS foram coletadas mensalmente.Para o estudo de prevalência foram selecionados aleatoriamente 43 rebanhos dos quais foram coletadas 3 amostras consecutivas de cada rebanho para análises microbiológicas durante o período de junho de 2016 a novembro de 2017. A análise espacial apresentou grau de dependência espacial e coeficiente de determinação fracos (GD<0,25; r2<0,13). A distribuição de frequência da CCS mostrou que apenas 23,3% dos rebanhos atendem ao limite de 400.000 células/mL . A prevalência de S. aureus foi de 93% a de S. agalactiae de 81,4% não diferindo estatisticamente entre si. Dos 43 rebanhos analisados, em tres (7%) não houve isolamento de S.aureus e de S. agalactiae, cinco (11,6%) apresentaram isolamento somente de S. aureus e 35 (81%) apresentaram isolamento de ambos patógenos. Não houve rebanhos com isolamento somente de S. agalactiae. Dos rebanhos sem isolamento destes agentes, a média de CCS foi de 224.000 células/mL, com isolamento somente de S. aureus a média de CCS foi de 447.000 células/mL, e para rebanhos com isolamento dos dois patógenos, S. aureus e S. agalactiae, 794.000 células/mL. Os rebanhos sem isolamento ou somente com isolamento de S. aureus estão associados a CCS inferior a 400.000 células/mL e rebanhos com isolamento de ambos os patógenos estão associados a CCS superior a 400.000 células/mL. A utilização da curva ROC para dados de CCS de rebanhos associados ao estudo de prevalência de S. aureus e de S. agalactiae permitiu classificar rebanhos em tres níveis de risco: baixo, médio e alto. A prevalência de S. aureus e de S. agalactiae entre rebanhos foi considerada alta para ambos patógenos, indicando que as medidas de controle para estes patógenos não estão sendo realizadas de maneira eficiente. Não foi observada diferença entre as prevalências de S. aureus e de S. agalactiae entre os rebanhos. Foi observada uma associação entre a CCS dos rebanhos e a presença de ambos os patógenos, permitindo desta forma uma classificação dos rebanhos. / Mastitis is among the most damaging diseases in dairy cattle worldwide. Among the causative agents are the pathogens of contagious origin Staphylococcus aureus and Streptococcus agalactiae that contribute most to the increase of Somatic Cell Count (SCC) in infected herds. Since the implantation of IN 51 in 2005, little progress was made in improving the SCC in the Brazilian dairy herds, therefore it is necessary to survey the mastitis situation of the regions in order to devise specific control strategies for mastitis control and compliance with the legislation requirements . The objective of the present study was to establish a risk - based classification (risk) for the presence of S. aureus and S. agalactiae in dairy herds located in the Zona da Mata of the State of Minas Gerais associated to a cooperative. The work was carried out using the population of dairy herds of Cooperativa dos Produtores de Leite de Leopoldina de Responsabilidade Ltda. (LAC).The evaluation of the spatial dependence between the geographical coordinates of the herds and the annual geometric mean of the somatic cell count was performed using semi-variograms and isoline maps using the Kriging method. Milk samples for SCC analyses were collected monthly. For the prevalence study, 43 herds were randomly selected and three milk samples from each herd were collected for microbiological analyzes during the period of June 2016 to November 2017. The spatial analysis presented degree of spatial dependence and weak determination coefficient (GD <0.25; r2 <0.13) The frequency distribution of CCS showed that only 23.3% of the herds met the limit of 400,000 cells / mL. The prevalence of S. aureus (93%) and of S. agalactiae (81.4%) did not differ statistically from one another. Of the 43 herds analyzed, three (7%) was no isolation of S. aureus and S. agalactiae, five (11.6%) had isolation only of S. aureus and 35 (81%) presented isolation of both pathogens. There were no herds with isolation of S. agalactiae. The mean SCC was 224,000 cels / mL, for the herds with absence of S. aureus and S. agalactiae, and 794.000 cels/ mL when the this two pathogens were present. The mean SCC for the herds with isolation only of S. aureus was 447,000 cells / mL,. The abcense or isolation only S. aureus herds are associated with CCS less than 400,000 cells / mL and herds with isolation of both pathogens associated with CCS greater than 400,000 cells / mL. The use of the ROC curve for herd CCS data associated to the study of S. aureus and S. agalactiae prevalence allowed the classification of the herds at three levels of risk: low, medium and high. The prevalence of S. aureus and S. agalactiae among herds was considered high for both pathogens, indicating that the control measures for these pathogens are not being carried out efficiently. There was no difference between the prevalences of S. aureus and S. agalactiae among the herds. An association was observed between the SCC of the herds and the presence of both pathogens, thus allowing a classification of the herds.

Não consta resumo na publicação. / Abstract not available.

The main aim of my thesis is to compare results of different groups of students who took part in the statistic course on VŠE. The thesis is dividend into two parts. The first part is focused on theoretical solution of used data comparison. The second part is practical and it is focused on results comparison from different angles with descriptive statistics and some statisistics tests. The results from partial comparison of data from different points of view are summarized at the end of the thesis.

Made available in DSpace on 2016-05-02T13:54:45Z (GMT). No. of bitstreams: 1 LuisaBarbosaMessora-dissertacao-completa.pdf: 574964 bytes, checksum: f3b5918f00bf09a802e755b11db471d0 (MD5) Previous issue date: 2010-11-21 / LDLr-/ - mice are spontaneously hyperlipidemic and resistant to the development of neointimal lesions. This study determined the influence of plasma levels of high density lipoprotein on cardiovascular inflammation, insulin resistance, and blood cell count in LDL (LDLr-/ -) receptor gene knockout mice. Three groups of 3-month-old male mice were used: Group WT, wild-type mice, Group S, LDLr-/ - mice fed a standard diet, Group HL, LDLr-/ - mice fed a hyperlipidic diet. After 15 days, blood was collected for analysis of plasma lipids, glucose, insulin, and hematological assays. The HOMA index was calculated to determine insulin resistance. The heart and aorta were removed and histologically processed. Heart sections were immunohistochemically processed with the anti-CD40L antibody to evaluate the inflammatory process. Artery sections were stained with hematoxylin-eosin and picrosirius red to assess morphological and morphometric changes. The S mice were resistant to inflammatory, had a low immunoreactivity to CD40L, high HDL plasma levels, and showed no insulin resistance, even with moderate hyperlipidemia in relation to WT. HL mice exhibited severe hyperlipidemia, increased immunoreactivity to CD40L, marked morphological alterations in the aorta wall, and insulin resistance, all associated with a decrease in HDL plasma levels in relation to S. The results showed a negative association between the plasma levels of high density lipoprotein and the total and differential leukocyte and platelet counts in the LDL receptor gene knockout mice. This ratio showed the important influence of the high density lipoprotein on the modulation of the immune and inflammatory response in dyslipidemias. Therefore, the evaluation of the blood cell count results, routinely correlated with the lipid plasma levels, can be promising in the prevention and prognosis of the severity of pathological conditions involving immune responses in dyslipidemias. The high HDL plasma level is a protective factor against the development of cardiovascular inflammation and insulin resistance in LDLr-/- mice, thus preventing the incidence of neointimal lesions. / Os camundongos LDLr-/- são hiperlipidêmicos espontâneos e resistentes ao desenvolvimento de lesões neointimais. O presente estudo teve como objetivo determinar a influência dos níveis plasmáticos de lipoproteína de alta densidade na inflamação cardiovascular, na resistência insulínica e no hemograma de camundongos knockout para gene do receptor de LDL (LDLr-/-). Foram utilizados 3 grupos experimentais de camundongos machos com 3 meses de idade: Grupo WT, camundongos selvagens; Grupo S, camundongos LDLr-/- que receberam ração padrão; Grupo HL, camundongos LDLr-/- que receberam ração hiperlipídica. Após 15 dias, o sangue foi coletado para análises plasmáticas dos lipídeos, glicose, insulina e para análises hematológicas. O índice de Homa foi calculado para determinar a resistência insulínica. O coração e aorta foram removidos e processados histologicamente. Cortes histológicos do coração foram processados imunoistoquimicamente com anticorpo anti-CD40L para avaliar processo inflamatório. Cortes histológicos das artérias foram corados com hematoxilina/eosina e picrosírius red para avaliar alterações morfológicas e morfométricas. Os camundongos S foram resistentes ao processo inflamatório, caracterizado por baixa imunorreatividade para o CD40L, com níveis plasmáticos de HDL elevados, e não desenvolveram resistência insulínica, mesmo com hiperlipidemia moderada em relação aos WT. Os camundongos HL apresentaram uma hiperlipidemia severa, aumento na imunorreatividade cardíaca para o CD40L, pronunciadas alterações morfológicas na parede da aorta e resistência insulínica, associadas a um decréscimo nos níveis plasmáticos do HDL em relação aos S. Os resultados mostraram uma associação negativa entre os níveis plasmáticos de lipoproteína de alta densidade e as contagens total e diferencial de leucócitos e plaquetas nos camundongos knockout para o gene do receptor de lipoproteína de baixa densidade. Essa relação demonstrou importante influência da lipoproteína de alta densidade na modulação da resposta imunológica e inflamatória na dislipidemia. Portanto, a avaliação dos resultados do hemograma correlacionada com os níveis plasmáticos de lipídeos, rotineiramente, pode ser promissora na prevenção e no prognóstico da severidade de quadros patológicos que envolvam respostas imunológicas nas dislipidemias. O nível plasmático elevado de HDL é o fator protetor contra o desenvolvimento de processos inflamatórios cardiovasculares e resistência insulínica nos camundongos LDLr-/-, impedindo o desenvolvimento das lesões neointimais.

Les progrès technologiques des vingt dernières années ont permis l’avènement d'une biologie à haut-débit reposant sur l'obtention de données à grande échelle de façon automatique. Les statisticiens ont un rôle important à jouer dans la modélisation et l'analyse de ces données nombreuses, bruitées, parfois hétérogènes et recueillies à différentes échelles. Ce rôle peut être de plusieurs natures. Le statisticien peut proposer de nouveaux concepts ou méthodes inspirées par les questions posées par cette biologie. Il peut proposer une modélisation fine des phénomènes observés à l'aide de ces technologies. Et lorsque des méthodes existent et nécessitent seulement une adaptation, le rôle du statisticien peut être celui d'un expert, qui connaît les méthodes, leurs limites et avantages. Le travail présenté dans cette thèse se situe à l'interface entre mathématiques appliquées et biologie, et relève plutôt des deuxième et troisième type de rôles mentionnés.Dans une première partie, j’introduis différentes méthodes développées pour l'analyse de données biologiques à haut débit, basées sur des modèles à variables latentes. Ces modèles permettent d'expliquer un phénomène observé à l'aide de variables cachées. Le modèle à variables latentes le plus simple est le modèle de mélange. Les deux premières méthodes présentées en sont des exemples: la première dans un contexte de tests multiples et la deuxième dans le cadre de la définition d'un seuil d'hybridation pour des données issues de puces à ADN. Je présente également un modèle de chaînes de Markov cachées couplées pour la détection de variations du nombre de copies en génomique prenant en compte de la dépendance entre les individus, due par exemple à une proximité génétique. Pour ce modèle, nous proposons une inférence approchée fondée sur une approximation variationnelle, l'inférence exacte ne pouvant pas être envisagée dès lors que le nombre d'individus augmente. Nous définissons également un modèle à blocs latents modélisant une structure sous-jacente par bloc de lignes et colonnes adaptées à des données de comptage issue de l'écologie microbienne. Les données issues de méta-codebarres ou de métagénomique correspondent à l'abondance de chaque unité d'intérêt (par exemple micro-organisme) d'une communauté microbienne au sein d'environnement (rhizosphère de plante, tube digestif humain, océan par exemple). Ces données ont la particularité de présenter une dispersion plus forte qu'attendue sous les modèles les plus classiques (on parle de sur-dispersion). La classification croisée est une façon d'étudier les interactions entre la structure des communautés microbiennes et les échantillons biologiques dont elles sont issues. Nous avons proposé de modéliser ce phénomène à l'aide d'une distribution Poisson-Gamma et développé une autre approximation variationnelle pour ce modèle particulier ainsi qu'un critère de sélection de modèle. La flexibilité et la performance du modèle sont illustrées sur trois jeux de données réelles.Une deuxième partie est consacrée à des travaux dédiés à l'analyse de données de transcriptomique issues des technologies de puce à ADN et de séquençage de l’ARN. La première section concerne la normalisation des données (détection et correction de biais techniques) et présente deux nouvelles méthodes que j’ai proposées avec mes co-auteurs et une comparaison de méthodes à laquelle j’ai contribuée. La deuxième section dédiée à la planification expérimentale présente une méthode pour analyser les dispositifs dit en dye-switch.Dans une dernière partie, je montre à travers deux exemples de collaboration, issues respectivement d'une analyse de gènes différentiellement exprimés à partir de données issues de puces à ADN, et d'une analyse du traductome chez l'oursin à partir de données de séquençage de l'ARN, la façon dont les compétences statistiques sont mobilisées et la plus-value apportée par les statistiques aux projets de génomique. / The technological progress of the last twenty years allowed the emergence of an high-throuput biology basing on large-scale data obtained in a automatic way. The statisticians have an important role to be played in the modelling and the analysis of these numerous, noisy, sometimes heterogeneous and collected at various scales. This role can be from several nature. The statistician can propose new concepts, or new methods inspired by questions asked by this biology. He can propose a fine modelling of the phenomena observed by means of these technologies. And when methods exist and require only an adaptation, the role of the statistician can be the one of an expert, who knows the methods, their limits and the advantages.In a first part, I introduce different methods developed with my co-authors for the analysis of high-throughput biological data, based on latent variables models. These models make it possible to explain a observed phenomenon using hidden or latent variables. The simplest latent variable model is the mixture model. The first two presented methods constitutes two examples: the first in a context of multiple tests and the second in the framework of the definition of a hybridization threshold for data derived from microarrays. I also present a model of coupled hidden Markov chains for the detection of variations in the number of copies in genomics taking into account the dependence between individuals, due for example to a genetic proximity. For this model we propose an approximate inference based on a variational approximation, the exact inference not being able to be considered as the number of individuals increases. We also define a latent-block model modeling an underlying structure per block of rows and columns adapted to count data from microbial ecology. Metabarcoding and metagenomic data correspond to the abundance of each microorganism in a microbial community within the environment (plant rhizosphere, human digestive tract, ocean, for example). These data have the particularity of presenting a dispersion stronger than expected under the most conventional models (we speak of over-dispersion). Biclustering is a way to study the interactions between the structure of microbial communities and the biological samples from which they are derived. We proposed to model this phenomenon using a Poisson-Gamma distribution and developed another variational approximation for this particular latent block model as well as a model selection criterion. The model's flexibility and performance are illustrated on three real datasets.A second part is devoted to work dedicated to the analysis of transcriptomic data derived from DNA microarrays and RNA sequencing. The first section is devoted to the normalization of data (detection and correction of technical biases) and presents two new methods that I proposed with my co-authors and a comparison of methods to which I contributed. The second section devoted to experimental design presents a method for analyzing so-called dye-switch design.In the last part, I present two examples of collaboration, derived respectively from an analysis of genes differentially expressed from microrrays data, and an analysis of translatome in sea urchins from RNA-sequencing data, how statistical skills are mobilized, and the added value that statistics bring to genomics projects.

Thesis (M. Sc. Agriculture (Soil Science)) -- University of Limpopo, 2015 / The activity and functional diversity of micro-organisms contribute to the stability and productivity of agro-ecosystems. Soil micro-organisms and enzyme activities have been suggested as potential indicators of soil quality. Hence, management practices that can enhance microbial diversity and enzyme activities are essential for improving soil health and soil fertility status. The aim of the study was to assess the effects of compost maturity age on the change in bio-quality indicators of compost and compost amended soil. Cattle manure-rich compost was prepared through thermophilic windrow composting using cattle manure and wood chips mixed at a proportion of 4:1 (w/w) to achieve a C:N ratio of 30:1. This compost was sampled at regular intervals of 30 days after the initiation of the composting process until 150 days when it was finally cured. Compost samples of varying degrees of maturity age were air-dried, pulverised and mixed with 1.2 kg surface soil at an equivalent rate of 100 kg P ha-1. Each compost amended soil was transferred into well labelled plastic pots for incubation. Sampling of incubated amended soils was performed at 7 days interval until 42 days; and the samples were used for microbial count, enzyme activity, and mineralisation assessments. Data generated were analysed as factorial experiment using SYSTAT package. Treatment and interaction effects were evaluated using Fisher protected least significant difference at probability level of 5%. Results of the chemical composition of the different composts are similar and comparable. Variation in compost maturity date, incubation time and their interaction exerted significant effects on the measured microbial counts and enzyme activities as bio-quality indicators. The content of bacteriameasured was consistently highest at each sampling date followed by the actinomycetes while fungi population count remained persistently lowest. Bacteria and β-glucosidase represent the dominant microbe and enzyme, respectively in all compost samples taken at different maturity age.The highest count of actinomycetes (6.18 CFU g-1), bacterial (6.73 CFU g-1) and fungi (3.06 CFU g-1) were obtained during the 42-day incubation period.Of all the enzyme activities studied, β-glucosidase content was consistently highest in all compost samples across the sampling dates. Similarly, the highest concentration of ß-glucosidase (3076 mg kg-1 hr-1), phosphatase (1480 mg kg-1 hr-1), dehydrogenase iv (120.07 μg INF g-1 2hr-1) and urease (26.15 mg kg-1 2hr-1) were obtained during the 42-day incubation period. The highest microbial counts and enzyme activities were reached beyond 19 days after incubation. Maximum Bray P1 (20.10 mg kg-1), ammonium N (108 mg kg-1) and nitrate N (189 mg kg-1) were obtained at 42, 14 and 42 days after incubation, respectively. The measured temporal change in the concentrations of bio-quality parameters in the compost-amended soils were highest in compost sampled at 90 days, except for phosphatase, indicating the peak of the thermophilic process. The bio-quality parameters of these composts and the compost amended soil were influenced by compost maturity and incubation time. The uses of mature compost with desirable level of bio-quality indicators are crucial for fertility management and improved soil health. Keywords: Compost maturity, enzyme activities, microbial count, nutrient release, soil fertility

In 2018, Raul Matsushita, Donald Pianto, Bernardo B. De Andrade, Andre Can§ado & Sergio Da Silva published a paper titled âTouchard distributionâ, which presented a model that is a two-parameter extension of the Poisson distribution. This model has its normalizing constant related to the Touchard polynomials, hence the name of this model. This diploma thesis is concerned with the properties of the Touchard distribution for which delta is known. Two asymptotic tests based on two different statistics were carried out for comparison in a Touchard model with two independent samples, supported by simulations in R.