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<p>Statistical models often rely on several assumptions including distributional assumptions on outcome variables and relational assumptions where we model the relationship between outcomes and independent variables. Further assumptions are also made depending on the complexity of the data and the model being used. Model diagnostics is, therefore, a crucial component of any model fitting problem. Residuals play important roles in model diagnostics. Residuals are not only used to check adequacy of model fit, but they also are excellent tools to validate model assumptions as well as identify outliers and influential observations. Residuals in univariate models are studied extensively and are routinely used for model diagnostics. In multivariate models residuals are not commonly used to assess model fit, although a few approaches have been proposed to check multivariate normality. However, in the analysis of longitudinal data, the resulting residuals are correlated and are not normally distributed. It is, therefore, not clear as to how ordinary residuals can be used for model diagnostics. Under sufficiently large sample size, a transformation of ordinary residuals are proposed to check the normality assumption. The transformation is based solely on removing correlation among the residuals. However, we show that these transformed residuals fail in the presence of model mis-specification. In this thesis, we investigate residuals in the analysis of longitudinal data. We consider ordinary residuals, Fitzmaurice’s transformed (uncorrelated) residuals as well as von Rosen’s decomposed residuals. Using simulation studies, we show how the residuals behave under multivariate normality and when this assumption is violated. We also investigate their properties under correct fitting as well as wrongly fitted models. Finally, we propose new residuals by transforming von Rosen’s decomposed residuals. We show that these residuals perform better than Fitzmourice’s transformed residuals in the presence of model mis-specification. We illustrate our approach using two real data sets.</p> / Master of Science (MSc)

Hot peppers are gaining popularity in the United States as both a vegetable and a spice. In 2008, jalapeño peppers were involved in a multistate outbreak of Salmonella Saintpaul. This is the first outbreak implicating jalapeño as a vehicle for foodborne illness. Hot peppers contain many compounds thought to possess antimicrobial characteristics. This research was conducted to provide more information on the interactions of pathogenic bacteria and jalapeño peppers, as well as to identify properties of Capsicum annuum that affect bacterial survival, growth, and inhibition. Behavior of pathogens associated with jalapeños was investigated by inoculating jalapeño fruits with a cocktail of Listeria monocytogenes, Salmonella enterica, or Escherichia coli O157:H7 on the intact external surface, injured external surface, or intact internal cavity and storing the jalapeños at 7°C or 12°C. Intact external jalapeñosurfaces did not support the growth of the bacteria tested under storage conditions of 7°C. However, L. monocytogenes populations remained detectable throughout the 2 week study. At 7°C, pathogenic bacteria were able to survive but not grow on injured and internally inoculated jalapeño, but populations increased at 12°C (p=0.05). The most supportive growth environment for the pathogenic bacteria was the internal cavity of jalapeño held at 12°C. This study demonstrated the importance of intact uninjured produce and proper storage temperatures for food microbial safety. Inhibitory properties of jalapeños were studied by making extracts from fresh jalapeño peppers to test for antimicrobial activity. A disk diffusion assay determined that the extracts were capable of inhibiting the growth of the pathogenic bacteria tested. Listeria monocytogenes was especially sensitive to the extracts. jalapeño extracts were fractionated using HPLC and used for inhibition assays using disk diffusion and growth curve generation. Two fractions stimulated bacterial growth (p=0.05), while two other fractions inhibited bacterial growth. The inhibitory fractions were separated further using HPLC and tested for antimicrobial activity. Fraction E1 suppressed the growth of L. monocytogenes. HPLC-MS analysis revealed that Fraction E1 contained compounds known as capsianosides. To prove that inhibition is caused by capsianoside(s) and determine minimum inhibitory concentrations, a method to isolate the pure compound should be developed. / Ph. D.

A Growth Curve Model (GCM) is a multivariate linear model used for analyzing longitudinal data with short to moderate time series. It is a special case of Generalized Multivariate Analysis of Variance (GMANOVA) models. Analysis using the GCM involves comparison of mean growths among different groups. The classical GCM, however, possesses some limitations including distributional assumptions, assumption of identical degree of polynomials for all groups and it requires larger sample size than the number of time points. In this thesis, we relax some of the assumptions of the traditional GCM and develop appropriate inferential tools for its analysis, with the aim of reducing bias, improving precision and to gain increased power as well as overcome limitations of high-dimensionality. Existing methods for estimating the parameters of the GCM assume that the underlying distribution for the error terms is multivariate normal. In practical problems, however, we often come across skewed data and hence estimation techniques developed under the normality assumption may not be optimal. Simulation studies conducted in this thesis, in fact, show that existing methods are sensitive to the presence of skewness in the data, where estimators are associated with increased bias and mean square error (MSE), when the normality assumption is violated. Methods appropriate for skewed distributions are, therefore, required. In this thesis, we relax the distributional assumption of the GCM and provide estimators for the mean and covariance matrices of the GCM under multivariate skew normal (MSN) distribution. An estimator for the additional skewness parameter of the MSN distribution is also provided. The estimators are derived using the expectation maximization (EM) algorithm and extensive simulations are performed to examine the performance of the estimators. Comparisons with existing estimators show that our estimators perform better than existing estimators, when the underlying distribution is multivariate skew normal. Illustration using real data set is also provided, wherein Triglyceride levels from the Framingham Heart Study is modelled over time. The GCM assumes equal degree of polynomial for each group. Therefore, when groups means follow different shapes of polynomials, the GCM fails to accommodate this difference in one model. We consider an extension of the GCM, wherein mean responses from different groups can have different shapes, represented by polynomials of different degree. Such a model is referred to as Extended Growth Curve Model (EGCM). We extend our work on GCM to EGCM, and develop estimators for the mean and covariance matrices under MSN errors. We adopted the Restricted Expectation Maximization (REM) algorithm, which is based on the multivariate Newton-Raphson (NR) method and Lagrangian optimization. However, the multivariate NR method and hence, the existing REM algorithm are applicable to vector parameters and the parameters of interest in this study are matrices. We, therefore, extended the NR approach to matrix parameters, which consequently allowed us to extend the REM algorithm to matrix parameters. The performance of the proposed estimators were examined using extensive simulations and a motivating real data example was provided to illustrate the application of the proposed estimators. Finally, this thesis deals with high-dimensional application of GCM. Existing methods for a GCM are developed under the assumption of ‘small p large n’ (n >> p) and are not appropriate for analyzing high-dimensional longitudinal data, due to singularity of the sample covariance matrix. In a previous work, we used Moore-Penrose generalized inverse to overcome this challenge. However, the method has some limitations around near singularity, when p~n. In this thesis, a Bayesian framework was used to derive a test for testing the linear hypothesis on the mean parameter of the GCM, which is applicable in high-dimensional situations. Extensive simulations are performed to investigate the performance of the test statistic and establish optimality characteristics. Results show that this test performs well, under different conditions, including the near singularity zone. Sensitivity of the test to mis-specification of the parameters of the prior distribution are also examined empirically. A numerical example is provided to illustrate the usefulness of the proposed method in practical situations. / Thesis / Doctor of Philosophy (PhD)

An increasingly older population will most likely lead to greater demands on the health care system, as older age is associated with an increased risk of having acute and chronic conditions. The number of diseases or disabilities is not the only marker of the amount of health care utilized, as persons may seek hospitalization without a disease and/or illness that requires hospital healthcare. Hospitalization may pose a severe risk to older persons, as exposure to the hospital environment may lead to increased risks of iatrogenic disorders, confusion, falls and nosocomial infections, i.e., disorders that may involve unnecessary suffering and lead to serious consequences. Aims: The overall aim of this thesis was to describe and explore individual trajectories of cognitive development in relation to hospitalization and risk factors for hospitalization among older persons living in different accommodations in Sweden and to explore older persons' reasons for being transferred to a hospital. Methods: The study designs were longitudinal, prospective and descriptive, and both quantitative and qualitative methods were used. Specifically, latent growth curve modelling was used to assess the association of cognitive development with hospitalization. The Cox proportional hazards regression model was used to analyse factors associated with hospitalization risk overtime. In addition, an explorative descriptive design was used to explore how home health care patients experienced and perceived their decision to seek hospital care. Results: The most common reasons for hospitalization were cardiovascular diseases, which caused more than one-quarter of first hospitalizations among the persons living in ordinary housing and nursing home residents (NHRs). The persons who had been hospitalized had a lower mean level of cognitive performance in general cognition, verbal, spatial/fluid, memory and processing speed abilities compared to those who had not been hospitalized. Significantly steeper declines in general cognition, spatial/fluid and processing speed abilities were observed among the persons who had been hospitalized. Cox proportional hazards regression analysis showed that the number of diseases, number of drugs used, having experienced a fall and being assessed as malnourished according to the Mini Nutritional Assessment scale were related to an increased hospitalization risk among the NHRs. Among the older persons living in ordinary housing, the risk factors for hospitalization were related to marital status, i.e., unmarried persons and widows/widowers had a decreased hospitalization risk. In addition, among social factors, receipt of support from relatives was related to an increased hospitalization risk, while receipt of support from friends was related to a decreased risk. The number of illnesses was not associated with the hospitalization risk for older persons in any age group or for those of either sex, when controlling for other variables. The older persons who received home health care described different reasons for their decisions to seek hospital care. The underlying theme of the home health care patients’ perceptions of their transfer to a hospital involved trust in hospitals. This trust was shared by the home health care patients, their relatives and the home health care staff, according to the patients. Conclusions: This thesis revealed that middle-aged and older persons who had been hospitalized exhibited a steeper decline in cognition. Specifically, spatial/fluid, processing speed, and general cognitive abilities were affected. The steeper decline in cognition among those who had been hospitalized remained even after controlling for comorbidities. The most common causes of hospitalization among the older persons living in ordinary housing and in nursing homes were cardiovascular diseases, tumours and falls. Not only health-related factors, such as the number of diseases, number of drugs used, and being assessed as malnourished, but also social factors and marital status were related to the hospitalization risk among the older persons living in ordinary housing and in nursing homes. Some risk factors associated with hospitalization differed not only between the men and women but also among the different age groups. The information provided in this thesis could be applied in care settings by professionals who interact with older persons before they decide to seek hospital care. To meet the needs of an older population, health care systems need to offer the proper health care at the most appropriate level, and they need to increase integration and coordination among health care delivered by different care services.

Mycoplasma (M.) genitalium é um importante agente de doença sexualmente transmissível sendo, responsável por uma série de desordens do trato urogenital humano. A aderência do micoplasma é um dos principais fatores de virulência na sua patogenicidade e conseqüente colonização nas células hospedeiras. Neste estudo, obte-se a curva de crescimento de duas cepas de M. genitalium (G37 e 1019V) utilizando-se da dosagem proteíca (BCA), densidade óptica (OD600) e PCR em tempo real. A cepa referencial G37 é de alta passagem e foi isolada de homens e a 1019V é de baixa passagem, sendo recentemente isolada de amostra clínica de cérvix humana. Utilizando-se da fase logarítimica obtida pela curva, comparou-se a dinâmica de interação destas cepas na célula epitelial de carcinoma de cérvix humana (HeLa) e na célula endometrial humana (EM42), em diferentes intervalos de tempo com auxílio de microscopia confocal. Apesar destas cepas divergirem na seqüência dos genes relacionados a aderência houve poucas variações entre as curvas de crescimento. A aderência e a invasão de M. genitalium nas células não fagocíticas confirmou os dados de literatura. Entretanto, após 30 minutos de contato com as células, detectou-se o antígeno de aderência de ambas as cepas na região intranuclear Este achado, indica uma nova característica desta espécie ainda não conhecida entre os molicutes. / Mycoplasma genitalium (Mg) is an important cause of sexual transmitted disease and has been implicated in a range of genital tract disorders.The adherence of mycoplasmas is a key virulence attribute, pathogenic features and consequences of host-cell colonization. Herein, we characterize growth properties of two Mg strains (G37 and 1019V) using BCA assay, OD600, CCU assay, real-time PCR. Based upon these strategies, we compared the behavior of similarly grown Mg variants coincubated with HeLa cervical epithelioid cells and EM42 endometrial cells over a dynamic time course.using laser scanning confocal microscopy. Mg G37 is a multiply passaged type strain isolated from a male while 1019V was recently isolated from human cervical samples and only minimally passaged. Both strains further diverge by sequence heterogeneities within adherence-related MG191 and MG192 genes. Despite these differences, our results identified only subtle variations in axenic growth for the two strains. Further and consistent with previous studies, a subset of adherent Mg organisms invaded host cells. However, intranuclear localization was observed, which occurred as early as 30 minutes after infection.

O ferro é essencial para a sobrevivência das bactérias, estando envolvido em vários processos metabólicos. Apesar de sua baixa solubilidade, as bactérias dispõem de sistemas eficientes e específicos para captação, utilização e armazenamento desse metal, ao mesmo tempo controlando adequadamente a concentração de ferro livre no meio, para evitar seus potenciais efeitos tóxicos. Xylella fastidiosa é uma bactéria gram-negativa que coloniza o xilema de uma diversidade de plantas cultivadas e silvestres em várias partes do mundo, sendo o agente causador de uma série de doenças em plantas economicamente importantes como citros, videiras e café. Alguns mecanismos de virulência de X. fastidiosa já foram elencados, entre esses a formação de biofilme, que promoveria a oclusão do xilema e consequente estresse hídrico para a planta. Postula-se que a captação de ferro por X. fastidiosa, causando redução da concentração desse metal no xilema das plantas infectadas, seja uma das estratégias utilizadas pela bactéria em seu processo de infecção. Nosso objetivo neste trabalho foi de investigar o processo de captação de ferro por X. fastidiosa e avaliar em maior detalhe o efeito da concentração de ferro no crescimento e na expressão de fatores de virulência dessa bactéria, expandindo os estudos anteriormente realizados em nosso grupo. Para tal propusemos: (i) avaliar a capacidade de X. fastidiosa produzir sideróforos, pequenas moléculas quelantes de ferro; (ii) investigar, em condições de cultivo com diferentes concentrações de ferro, o perfil de expressão de alguns genes de X. fastidiosa que possam ser integrantes do stimulon do ferro; (iii) analisar o efeito da concentração de ferro no crescimento e formação de biofilme por X. fastidiosa. Observamos que X. fastidiosa parece produzir um composto quelante de ferro que pode ser um sideróforo e elencamos alguns genes que poderiam estar envolvidos na síntese desse composto. Confirmamos que ferro é necessário para o crescimento de X. fastidiosa, sendo que em alta concentração de ferro foi observada maior deposição de biofilme pela cultura bacteriana. Interessantemente também foi observado que as células crescidas em meio com pouco ferro secretaram mais exopolissacarídeos totais na fração do biofilme, o que estabelece uma relação entre as concentrações de ferro no meio com a expressão de um fator de virulência essencial para o desenvolvimento da infecção por X. fastidiosa. / Iron is an essential nutrient for bacteria, being involved in many metabolic processes. Despite its low solubility, bacteria present efficient and specific systems for uptake, utilization and storage of iron, meanwhile controlling metal concentration adequately to prevent potential toxic effects of free iron. Xylella fastidiosa is a Gram-negative bacterium which colonizes the xylem of a wide range of crops and wild species of plants worldwide. This bacterium is the agent of several diseases affecting economically important crops, such as citrus, grapevine and coffee. Among the proposed X. fastidiosa virulence mechanisms is the formation of biofilm which may occlude xylem vessels causing hydric stress. It is postulated that iron uptake might cause reduction of its concentration within the xylem of infected plants therefore constituting a virulence strategy during bacterial infection process. Our aims in this work were to investigate the process of iron uptake in X. fastidiosa and to evaluate the effect of iron concentration in the growth and morphology of this bacterium, expanding previous studies. For this we set to: (i) investigate the capacity of X. fastidiosa in producing siderophores, small biomolecules utilized for iron quelation; (ii) evaluate, under culture conditions at different iron concentrations, the expression profile of candidate genes that might be part of the iron stimulon; (iii) analyse the effect of iron concentration in growth and biofilm formation of X. fastidiosa. We observed that X. fastidiosa seems to produce a compound with iron quelating ability, such as a siderophore, and we point to a group of genes that might be involved in the synthesis of this compound. We confirmed that iron is necessary for growth of X. fastidiosa. At high concentrations of iron we observed higher biofilm production. Interestingly, we also observed that when grown in low iron concentration, X. fastidiosa secretes more exopolysaccharides (EPS) associated with the biofilm, suggesting a link between iron concentration and expression of an essential virulence factor to the infection process of X. fastidiosa.

Este estudo foi realizado para detectar quantitative trait loci (QTL) afetando características e curva de crescimento numa população F2 Holandês x Gir. As características estudadas foram peso ao nascer (BW), peso à desmama (WW), peso aos 205 dias (W205), peso ao sobreano (YW), peso aos 720 dias (W720), ganho de peso diário do nascimento ao desmama (ADG0_60), ganho de peso diário da desmama ao peso aos 205 dias (ADG60_205), ganho de peso diário de peso ao 205 dias ao peso ao sobreano (ADG205_365), ganho de peso diário do sobreano ao peso aos 720 dias (ADG365_720), ganho de peso diário total (ADG), curva de crescimento de peso ao nascer ao peso aos 720 dias (GC). 180 marcadores microssatélites, abrangendo os 29 autossomos bovino e cobrindo 3,322 cM foram selecionados a partir do mapa genético bovino. A média de intervalo de marcador foi 22 cM. Vinte e oito QTLs foram detectados em dez cromossomos, quinze QTLs tem modo aditivo, dois QTLs tem modo de dominância e onze QTLs têm sobredominância como modo de ação. Um QTL sugestivo foi detectado para BW no cromossomo BTA 17 em 1 cM. Um QTL sugestivo foi detectado para W205 no BTA 3 a 20 cM. Quatro QTLs sugestivos foram encontrados para YW no BTA 3 a 7 cM, no BTA 6 a 134,9 cM, no BTA 12 a 1 cM, e no BTA 22 a 1 cM. Para W720, seis QTLs sugestivos foram identificados, no BTA 2 a 30 cM, no BTA 3 a 1 cM, no BTA 6 a 44 cM, no BTA 10 a 20 cM, no BTA 12 a 1cM e no BTA 22 a 1 cM. Um QTL sugestivo foi identificado para ADG0_60 no BTA 8 a 143 cM. Dois QTLs sugestivos foram relatados para ADG60_205 no BTA 3 a 19 cM e no BTA 23 19 cM. Um QTL sugestivo foi observado para ADG205_365 no BTA 12 a 7 cM. Para ADG365_720, três QTLs foram detectados. Dois QTLs têm efeitos sugestivos no BTA 1 a 12 cM e no BTA 10 a 22 cM, um QTL significativo no BTA 6 a 43 cM. Seis QTLs sugestivos para ADG foram encontrados no BTA 2 a 32 cM, no BTA 3 a 1 cM, no BTA 6 a 43 cM, no BTA 10 a 20 cM, no BTA 12 a 1 cM e no BTA 22 a 1 cM. Três QTLs sugestivos foram identificados por GC no BTA 2 a 34 cM, no BTA 12 a 2 cM e no BTA 22 a 3 cM. Nenhum QTL foi detectado para WW em todos os cromossomos. Existem vários efeitos pleiotrópcos nos cromossomos BTA 2, 3, 6, 10, 12 e 22, os quais influenciam as características de crescimento. Foram detectados 22 efeitos epistáticos complexos para as cinco características YW, W720, GC, ADG365_720 e ADG. / This study was conducted to detect quantitative trait loci (QTL) affecting growth traits and growth curve using F2 Holstein x Gyr population. Traits analyzed were birth weight (BW), weaning weights (WW), weight at 205 day (W205), yearling weight (YW), weight at 720 day (W720), average daily gain from birth to weaning weight (ADG0_60), average daily gain from weaning weight to weight at 205 days (ADG60_205), average daily gain from weight at 205 days to yearling weight (ADG205_365), average daily gain from yearling weight to weight at 720 days (ADG365_720), total average daily gain (ADG), and growth curve from birth weight to weight at 720 days (GC). 180 microsatellite markers covering the 29 bovine autosomes and covered 3322 cM were chosen from bovine genetic map. The average marker interval was 22 cM. Twenty eight QTLs detected span ten chromosomes, fifteen QTLs had additive mode, two QTLs had dominance mode and eleven QTLs had overdominance mode of gene action. Suggestive QTL was found for BW on BTA 17 at 1 cM. Also, Suggestive QTL was detected for W205 on BTA 3 at 20 cM. Four suggestive QTLs were found for YW on BTA 3 at 7 cM, on BTA 6 at 134.9 cM, on BTA 12 at 1 cM, and on BTA 22 at 1 cM. For W720, six suggestive QTLs were identified, on BTA 2 at 30 cM, on BTA 3 at 1 cM, on BTA 6 at 44 cM, on BTA 10 at 20 cM, on BTA 12 at 1cM and on BTA 22 at 1 cM. Suggestive QTL was observed for ADG0_60 on BTA 8 at 143 cM. Two suggestive QTLs were reported for ADG60_205 on BTA 3 at 19 cM and on BTA 23 at 19 cM. Suggestive QTL was observed for ADG205_365 on BTA 12 at 7 cM. For ADG365_720, three QTLs were detected. Two QTLs had suggestive effect on BTA 1 at 12 cM and BTA 10 at 22 cM, one significant QTL on BTA 6 at 43 cM. Six suggestive QTLs were found for ADG on BTA 2 at 32 cM, BTA 3 at 1 cM, BTA 6 at 43 cM, BTA 10 at 20 cM, BTA 12 at 1 cM and BTA 22 at 1 cM. Three suggestive QTLs were identified for GC on BTA 2 at 34 cM, BTA 12 at 2 cM and BTA 22 at 3 cM. No QTLs were detected for WW in all chromosomes. There were many pleiotropy effects on BTA 2, 3, 6, 10, 12 and 22 influencing growth traits. There were 22 complexes epistatic effects were detected for five traits YW, W720, GC, ADG365_720 and ADG.

Recentemente, tem sido constatadas falhas no controle da planta daninha capim-branco (Chloris polydactyla) pelo herbicida glyphosate em áreas de culturas anuais e perenes no Brasil. Suspeita-se que estas falhas sejam decorrentes da seleção de populações resistentes desta planta daninha ao glyphosate. No entanto, até o momento, poucos relatos estão disponíveis na literatura caracterizando estas falhas. Esta pesquisa teve como objetivo a caracterização dos níveis de suscetibilidade de populações que apresentaram falha de controle, assim como estudar seus mecanismos de resistência. Também foi objetivo do trabalho analisar comparativamente o crescimento das populações suscetíveis e as supostamente resistentes ao glyphosate e avaliar a eficácia de herbicidas considerados alternativos ao glyphosate. Na primeira etapa, foram estudadas 87 populações do capim-branco vinda de diferentes regiões do Brasil, das quais duas sobreviveram ao experimento designado \"screening\". Esses dois biótipos, 59 e 69, juntamente com outras 15 populações suscetíveis, foram submetidos a experimentos de dose-resposta para a caracterização de suas suscetibilidades e determinação da dose eficiente de controle, da qual foi calculada em 705,41 g e.a. ha-1 de glyphosate. Em seguida, os biótipos supostamente resistentes foram comparados a um biótipo suscetível (34) para o cálculo do fator de resistência, que variou entre 3,92 e 7,95, confirmando a resistência dos biótipos. Não foi possível inferir claramente que existem diferenças de crescimento entre os biótipos resistente e suscetível que implicaria em custo adaptativo do biótipo resistente. No entanto, fica evidente que nas fases iniciais de crescimento, o biótipo 34S foi ou superior ou estatisticamente igual ao biótipo 69R. Não foi possível estabelecer uma relação entre diferenças de suscetibilidade entre os biótipos, portanto, a resistência do biótipo 69R ao glyphosate não alterou sua suscetibilidade aos herbicidas alternativos ao glyphosate aqui estudados. Na pós-emergência, clethodim e fenoxaprop-P-ethyl foram eficientes para controlar os biótipos 34S e 69R, enquanto que em pré-emergência, todos os herbicidas testados foram eficientes. O biótipo 69R absorveu menor quantidade de 14glyphosate em relação ao biótipo 34S em todos os tratamentos, do qual foi estatisticamente inferior àqueles contendo 14glyphosate + surfactante não-iônico (0,25%), 14glyphosate + sulfato de amônio (3kg ha-1) e 14glyphosate isolado. O tratamento que proporcionou maior absorção para ambos os biótipos foi o 14glyphosate + surfactante não-iônico. O biótipo 69R teve absorção máxima (Amax) 17% inferior ao biótipo 34S e maior retenção de 14glyphosate na folha tratada. O acúmulo de ácido chiquímico no biótipo 34S foi 2,56 vezes maior que no biótipo 69R. Mutações no gene que codificam a EPSPs dos biótipos 34S e 69R não foram observadas. Por fim, baseando-se nos dados aqui obtidos, é possível afirmar que a absorção reduzida, bem como a maior retenção do 14glyphosate nas folhas do biótipo 69R, possuem papel importante na resistência desse biótipo ao glyphosate. / It has been recently observed failures in controlling Tall windmill grass (Chloris polydactyla) by glyphosate in agricultural areas in Brazil. It is suspected that these failures are due to selection of resistant biotypes to glyphosate. However, to date, few reports are available in the literature characterizing these failures. Therefore, this study aimed to characterize the levels of susceptibility of differents populations of Chloris polydactyla, and to study the possible mechanisms of resistance to glyphosate. It was also an objective of this study to build a comparative growth analysis between populations, as well as evaluating the effectiveness of alternatives herbicides to glyphosate. In the first step, 87 populations from different regions of Brazil were studied, of which two survived the experiment called \"screening\". These two biotypes, 59 and 69, along with 15 other susceptible populations were subjected to a dose- response experiment for the characterization and determination of their susceptibility to glyphosate and a baseline herbicide sensitivity was obteined, which was calculated in 705.41 g ae ha-1 of glyphosate. Then the supposedly resistant biotypes (59R and 69R) were compared to a susceptible population (34S) for calculate the resistance factor, which ranged from 3.92 to 7.95, confirming the resistance of the biotypes. It was impossible to infer accurately that there are differences in growth between the resistant and susceptible biotypes of Tall windmill grass, which would imply in fitness penalty for the resistant biotype. However, it is evident that in the early growth stages, in most of the variables analyzed, the 34S was biotype or higher or statistically equal to biotype 69R. It was not possible to establish a statistical difference in susceptibility among biotypes, therefore the resistance of 69R biotype to glyphosate did not alter its susceptibility to alternative herbicides. At post-emergence, clethodin and fenoxaprop-P-ethyl were efficient to control biotypes 34S and 69R. On the other hand, at pre-emergence, all herbicides were efficient to control both biotypes. The biotype 69R absorbed smaller amount of 14glyphosate relative to 34S biotype in all treatments, which was statistically inferior to those containing 14glyphosate + non-ionic surfactant (0.25%), 14glyphosate + ammonium sulfate (3 kg ha-1) and 14glyphosate alone. The treatment providing greater absorption for both biotypes was 14glyphosate + non-ionic surfactant. Biotype 69R absorbed 17% less than the biotype 34S and had higher treated leaf retention. The shikimic acid accumulation assay in the biotype 34S was 2.56 times higher than in biotype 69R. Mutations in the gene encoding EPSPs were not observed. Finally, based on data obtained here, it is clear that the reduced absorption and treated leaf retention of 14glyphosate in biotype 69R, have an important role in the resistance of this biotype to glyphosate.

Orientador: Nilva Kazue Sakomura / Banca: Elisabeth Gonzales / Banca: Renato Luis Furlan / Banca: Alice Eiko Murakami / Banca: Francisco Ernesto Moreno Bernal / Resumo: Com objetivo determinar os parâmetros de crescimento do peso vivo e da ave depenada, das penas e componentes químicos corporais, das partes, dos órgãos e tecidos de frangos de corte, machos e fêmeas das linhagens Ross e Cobb, foram utilizados 1920 pintos criados em galpão alojados em boxes. O delineamento foi inteiramente casualizado em esquema fatorial 2x2 (linhagens e sexo), 4 repetições de 120 aves cada. Foi avaliado o crescimento das aves depenadas e das penas, das partes e dos órgãos, dos músculos, ossos e peles. Foram realizados abates semanais até 56 dias de idade, após jejum de 24 horas. As aves foram pesadas para obtenção do peso de jejum, um grupo de aves foram depenados para obter o peso de penas, e as demais aves foram evisceradas e realizadas os cortes para avaliação do desenvolvimento das partes e órgãos. Após, foram pesadas, identificadas e congeladas. Posteriormente, as amostras foram moídas, liofilizadas e encaminhadas para análises de matéria seca, nitrogênio, extrato etéreo e cinzas. Foram elaboradas curvas e taxas de crescimento através da equação de Gompertz. As aves Cobb foram mais precoces no crescimento e deposição de proteína e cinzas corporais, na deposição de proteína, gordura e água das penas, na taxa de crescimento e deposição de nutrientes da coxa, dorso, cabeça, proventrículo e no crescimento do intestino. As aves Ross apresentaram maior potencial de crescimento de asa, pescoço, sobrecoxa e pés, e foram mais precoces no crescimento das penas, do fígado e deposição de água e cinzas no fígado. Houve semelhança entre as linhagens para peso do músculo, crescimento e deposição de nutrientes para o peito e coração e no peso e proteína dos ossos. / Abstract: The objective of this study was determine the growth parameters of the live weight, of feathers, of parts, organs and tissues and body chemical components strains chickens, males and females Cobb and Ross broilers. Were used 1920 chicks raised in boxes from 1 to 56 days of age, distributed randomly in a factorial model (2 strains x 2 sex), with 4 replicate pens of 120 birds. The birds were fed ad libitum with diets formulated according to requirements for each age phase. The birds were weight and four birds of each group were slaughtered weekly. Afther 24 hours of fasting, the birds were slaughtered to determined body, parts, organs, tissues weight and nutrients deposition. Thereafther, samples were freeze-fried to be analized for dry matter, protein, ash and fat. The parameters of weight and in nutrient depositions obtained weekly were adjusted by the Gompertz equation in order to estimate the growth parameters Wt= Wm exp(-exp(-B(t-t))). The growth and body nutrients deposition rates were determined by derived of the equations. Cobb broilers were more precocious in growth and of body protein and ash deposition than Ross. The deposition of protein, fat and water feather, in growth rate and depositions of nutrients in the thigh, dorsum, head and proventriculum and intestine were higher compared to Ross. The of Ross boilers was bigger than Cobb wing, neck, drumstick and feet growth potential. The Ross strains were more precocious in the growth of leg, liver and depositions of water and ash in the liver. The strains had similarity growth potencial of muscle and nutrients deposition in the breast, heart and bones. / Doutor