Otimização de protocolo para análise de AFLP em Lolium multiflorum Lam.

ESTABELECIMENTO DE METODOLOGIA PARA ANÁLISE MOLECULAR DE AZEVÉM ANUAL COM MARCADORES AFLP. O uso de marcadores moleculares no manejo de bancos de germoplasma tem sido cada vez mais expressivo. Entre os diferentes tipos de marcadores moleculares, o AFLP, Amplified Fragment Length Polymorphism, apresenta algumas vantagens para uso na caracterização de recursos genéticos, como a detecção de grande número de bandas informativas por reação, com ampla cobertura do genoma e considerável reprodutibilidade, além de não necessitar de dados de seqüenciamento prévio da espécie para a construção de primers. Embora a análise de AFLP seja freqüentemente utilizada em estudos de variabilidade genética em diferentes espécies, o uso da técnica em Lolium multiflorum ainda é incipiente. Com a finalidade de estabelecer um protocolo para o emprego da técnica de AFLP em azevém anual foi conduzido este trabalho. Foram avaliadas as concentrações iniciais de DNA genômico de 100 e 250 ng, a digestão do DNA com 1,25 e 1U das enzimas EcoRI e MSe, e os respectivos tempos de reação de digestão: 3, 6 e 12 horas. Também foram avaliadas quatro concentrações da solução resultante da ligação dos adaptadores: solução sem diluição; diluída 1:5; 1:10 e 1:20 e duas diluições após a reação de pré-amplificação, de 1:25 e 1:50. Como resultado, foi estabelecido como melhor protocolo, no qual foi obtido um maior número e qualidade de fragmentos, o que utiliza a concentração inicial de DNA genômico de 100 ng, num volume final de reação de digestão 10 ?l, com 1U de cada enzima EcoRI e MseI e tempo de reação de 12h a 37°C, com reação de ligação de adaptadores realizada com a adição da solução de ligação de adaptadores, do Kit AFLP? Analysis System I (InvitroGen Life Technologies, Carlsbad, Calif., USA), e 0,4 U de T4 DNA ligase em um volume final de 10?l, por 2h a 20°C. Após a ligação de adaptadores a diluição deverá ser de 1:5. A reação de pré-amplificação deverá ocorrer a partir de 1?l desta última solução (diluída 1:5), 1,0 X PCR buffer com Mg Plus [Tris-HCl (pH 7.6) 20 mM, MgCl2 1,5 mM, KCl 50 mM], BSA 0,003% e 1 U de Taq DNA polimerase, completando com mix de pré-amplificação do Kit AFLP? Analysis System I até alcançar o volume final de 11?l. O produto da pré-amplificação deverá ser diluído 1:25 antes de ser procedida à amplificação seletiva, a qual deve ser realizada utilizando 2,5 ?l da solução de DNA pré-amplificado (diluído 1:25), 1 X PCR buffer com Mg Plus [Tris-HCl (pH 8,4) 20 mM, MgCl2 1,5 mM, KCl 50 mM], BSA (0,003%), 1 U de Taq DNA polimerase, 10 ng de primer EcoRI, 1,5 ng de primer MseI, 0,4mM de DNTps e H2O MilliQ? até completar o volume final de 10?l. Com este protocolo uma única combinação de primers permitiu identificar 58 bandas polimórficas na análise de duas populações de azevém anual.

Características agronômicas de bananeira Terra, cv. D'Angola, em consórcio com açaizeiro (Euterpe precatoria Mart.).

O sistema de cultivo em consórcio de fruteiras com outras culturas, sejam anuais, semiperenes ou perenes, constitui uma boa alternativa para propriedades rurais e uma importante forma de recuperação de áreas degradadas. O objetivo deste trabalho foi avaliar o comportamento de bananeira, cv. D'Angola, em monocultivo e consorciada com açaizeiro, Euterpe precatoria, em diferentes espaçamentos, no primeiro ciclo de produção. Para tanto, foi instalado um experimento seguindo um delineamento em blocos casualizados completos com quatro repetições e seis plantas por parcela. Os tratamentos foram: T1 ? bananeira em 3 m x 3 m (1.111 plantas ha-1); T2 ? bananeira em 3 m x 2 m (1.666 plantas ha-1) com açaizeiro em 3 m x 4 m (833 plantas ha-1); T3 ? bananeira em 3 m x 3 m (1.111 plantas ha-1) com açaizeiro em 3 m x 4 m (833 plantas ha-1); T4 ? bananeira em 4 m x 2 m x 2 m (1.666 plantas ha-1) com açaizeiro em 6 m x 3 m (555 plantas ha-1) e T5 ? bananeira em 4 m x 2 m x 2 m (1.666 plantas ha-1) com açaizeiro em 4 m x 2 m x 3 m (1.111 plantas ha-1). O sistema de cultivo da bananeira terra consorciada com açaizeiro em diferentes espaçamentos pode ser considerado como boa alternativa no primeiro ciclo, pois não apresentou interferência nas características de desenvolvimento, de produção e qualidade física dos frutos. Os plantios mais adensados propiciaram maiores produtividades no primeiro ciclo da cultura.

Body composition and bone mineral density changes during a premier league season as measured by dual-energy X-ray absorptiometry

Wallace, Joanne, et al., 'Body composition and bone mineral density changes during a premier league season as measured by dual-energy X-ray absorptiometry', International Journal of Body Composition Research (2006) 4(2) pp.61-66 RAE2008

Alterações do Funcionamento da Glândula da Tiróide

Projeto de Pós-Graduação/Dissertação apresentado à Universidade Fernando Pessoa como parte dos requisitos para obtenção do grau de Mestre em Ciências Farmacêuticas

On the Origin of Power Laws in Internet Topologies

Recent empirical studies have shown that Internet topologies exhibit power laws of the form for the following relationships: (P1) outdegree of node (domain or router) versus rank; (P2) number of nodes versus outdegree; (P3) number of node pairs y = x^α within a neighborhood versus neighborhood size (in hops); and (P4) eigenvalues of the adjacency matrix versus rank. However, causes for the appearance of such power laws have not been convincingly given. In this paper, we examine four factors in the formation of Internet topologies. These factors are (F1) preferential connectivity of a new node to existing nodes; (F2) incremental growth of the network; (F3) distribution of nodes in space; and (F4) locality of edge connections. In synthetically generated network topologies, we study the relevance of each factor in causing the aforementioned power laws as well as other properties, namely diameter, average path length and clustering coefficient. Different kinds of network topologies are generated: (T1) topologies generated using our parametrized generator, we call BRITE; (T2) random topologies generated using the well-known Waxman model; (T3) Transit-Stub topologies generated using GT-ITM tool; and (T4) regular grid topologies. We observe that some generated topologies may not obey power laws P1 and P2. Thus, the existence of these power laws can be used to validate the accuracy of a given tool in generating representative Internet topologies. Power laws P3 and P4 were observed in nearly all considered topologies, but different topologies showed different values of the power exponent α. Thus, while the presence of power laws P3 and P4 do not give strong evidence for the representativeness of a generated topology, the value of α in P3 and P4 can be used as a litmus test for the representativeness of a generated topology. We also find that factors F1 and F2 are the key contributors in our study which provide the resemblance of our generated topologies to that of the Internet.

Mutational and molecular analyses of lactococcal bacteriophages TP901-1 and Tuc2009

Bacteriophages belonging to the Siphoviridae family represent viruses with a noncontractile tail that function as extremely efficient bacterium-infecting nanomachines. The Siphoviridae phages TP901-1 and Tuc2009 infect Lactococcus lactis, and both belong to the so-called P335 species. As P335 phages are typically capable of a lytic and lysogenic life cycle, a number of molecular tools are available to analyse their virions. This doctoral thesis describes mutational and molecular analyses of TP901-1 and Tuc2009, with emphasis on the role of their tail-associated structural proteins. Several novel and intriguing findings discovered during the course of this study on the nature of Siphoviridae phages furthers a basic molecular understanding of their virions, and the role of their virion proteins, during the initial stages of infection. While Siphoviridae virions represent complex quaternary structures of multiple proteins and subunits thereof, mutagenic analysis represents an efficient mechanism to discretely characterize the function of individual proteins, and constituent amino acids, in the assembly of the phage structure and their biological function. However, as always, more research is required to delve deeper into the mechanisms by which phages commence infection. This is important to advance our understanding of this intricate process and to facilitate application of such findings to manipulate phage infections. On the one hand, we may want to prevent phages from infecting starter cultures used in the dairy industry, while on the other hand it may be desirable to optimize viral infection for the application of phages as bacterial parasites and therapeutic agents.

The biodiversity, control and genetic characterisation of the lactococcal 936 group phages

Phages belonging to the 936 group represent one of the most prevalent and frequently isolated phages in dairy fermentation processes using Lactococcus lactis as the primary starter culture. In recent years extensive research has been carried out to characterise this phage group at a genomic level in an effort to understand how the 936 group phages dominate this particular niche and cause regular problems during large scale milk fermentations. This thesis describes a large scale screening of industrial whey samples, leading to the isolation of forty three genetically different lactococcal phages. Using multiplex PCR, all phages were identified as members of the 936 group. The complete genome of thirty eight of these phages was determined using next generation sequencing technologies which identified several regions of divergence. These included the structural region surrounding the major tail protein, the replication region as well as the genes involved in phage DNA packing. For a number of phages the latter genomic region was found to harbour genes encoding putative orphan methyltransferases. Using small molecule real time (SMRT) sequencing and heterologous gene expression, the target motifs for several of these MTases were determined and subsequently shown to actively protect phage DNA from restriction endonuclease activity. Comparative analysis of the thirty eight phages with fifty two previously sequenced members of this group showed that the core genome consists of 28 genes, while the non-core genome was found to fluctuate irrespective of geographical location or time of isolation. This study highlights the continued need to perform large scale characterisation of the bacteriophage populations infecting industrial fermentation facilities in effort to further our understanding dairy phages and ways to control their proliferation.

Antisense Gene Silencing and Bacteriophages as Novel Disinfection Processes for Engineered Systems

The growth and proliferation of invasive bacteria in engineered systems is an ongoing problem. While there are a variety of physical and chemical processes to remove and inactivate bacterial pathogens, there are many situations in which these tools are no longer effective or appropriate for the treatment of a microbial target. For example, certain strains of bacteria are becoming resistant to commonly used disinfectants, such as chlorine and UV. Additionally, the overuse of antibiotics has contributed to the spread of antibiotic resistance, and there is concern that wastewater treatment processes are contributing to the spread of antibiotic resistant bacteria.

Due to the continually evolving nature of bacteria, it is difficult to develop methods for universal bacterial control in a wide range of engineered systems, as many of our treatment processes are static in nature. Still, invasive bacteria are present in many natural and engineered systems, where the application of broad acting disinfectants is impractical, because their use may inhibit the original desired bioprocesses. Therefore, to better control the growth of treatment resistant bacteria and to address limitations with the current disinfection processes, novel tools that are both specific and adaptable need to be developed and characterized.

In this dissertation, two possible biological disinfection processes were investigated for use in controlling invasive bacteria in engineered systems. First, antisense gene silencing, which is the specific use of oligonucleotides to silence gene expression, was investigated. This work was followed by the investigation of bacteriophages (phages), which are viruses that are specific to bacteria, in engineered systems.


For the antisense gene silencing work, a computational approach was used to quantify the number of off-targets and to determine the effects of off-targets in prokaryotic organisms. For the organisms of Escherichia coli K-12 MG1655 and Mycobacterium tuberculosis H37Rv the mean number of off-targets was found to be 15.0 + 13.2 and 38.2 + 61.4, respectively, which results in a reduction of greater than 90% of the effective oligonucleotide concentration. It was also demonstrated that there was a high variability in the number of off-targets over the length of a gene, but that on average, there was no general gene location that could be targeted to reduce off-targets. Therefore, this analysis needs to be performed for each gene in question. It was also demonstrated that the thermodynamic binding energy between the oligonucleotide and the mRNA accounted for 83% of the variation in the silencing efficiency, compared to the number of off-targets, which explained 43% of the variance of the silencing efficiency. This suggests that optimizing thermodynamic parameters must be prioritized over minimizing the number of off-targets. In conclusion for the antisense work, these results suggest that off-target hybrids can account for a greater than 90% reduction in the concentration of the silencing oligonucleotides, and that the effective concentration can be increased through the rational design of silencing targets by minimizing off-target hybrids.

Regarding the work with phages, the disinfection rates of bacteria in the presence of phages was determined. The disinfection rates of E. coli K12 MG1655 in the presence of coliphage Ec2 ranged up to 2 h-1, and were dependent on both the initial phage and bacterial concentrations. Increasing initial phage concentrations resulted in increasing disinfection rates, and generally, increasing initial bacterial concentrations resulted in increasing disinfection rates. However, disinfection rates were found to plateau at higher bacterial and phage concentrations. A multiple linear regression model was used to predict the disinfection rates as a function of the initial phage and bacterial concentrations, and this model was able to explain 93% of the variance in the disinfection rates. The disinfection rates were also modeled with a particle aggregation model. The results from these model simulations suggested that at lower phage and bacterial concentrations there are not enough collisions to support active disinfection rates, which therefore, limits the conditions and systems where phage based bacterial disinfection is possible. Additionally, the particle aggregation model over predicted the disinfection rates at higher phage and bacterial concentrations of 108 PFU/mL and 108 CFU/mL, suggesting other interactions were occurring at these higher concentrations. Overall, this work highlights the need for the development of alternative models to more accurately describe the dynamics of this system at a variety of phage and bacterial concentrations. Finally, the minimum required hydraulic residence time was calculated for a continuous stirred-tank reactor and a plug flow reactor (PFR) as a function of both the initial phage and bacterial concentrations, which suggested that phage treatment in a PFR is theoretically possible.

In addition to determining disinfection rates, the long-term bacterial growth inhibition potential was determined for a variety of phages with both Gram-negative and Gram-positive bacteria. It was determined, that on average, phages can be used to inhibit bacterial growth for up to 24 h, and that this effect was concentration dependent for various phages at specific time points. Additionally, it was found that a phage cocktail was no more effective at inhibiting bacterial growth over the long-term than the best performing phage in isolation.

Finally, for an industrial application, the use of phages to inhibit invasive Lactobacilli in ethanol fermentations was investigated. It was demonstrated that phage 8014-B2 can achieve a greater than 3-log inactivation of Lactobacillus plantarum during a 48 h fermentation. Additionally, it was shown that phages can be used to protect final product yields and maintain yeast viability. Through modeling the fermentation system with differential equations it was determined that there was a 10 h window in the beginning of the fermentation run, where the addition of phages can be used to protect final product yields, and after 20 h no additional benefit of the phage addition was observed.

In conclusion, this dissertation improved the current methods for designing antisense gene silencing targets for prokaryotic organisms, and characterized phages from an engineering perspective. First, the current design strategy for antisense targets in prokaryotic organisms was improved through the development of an algorithm that minimized the number of off-targets. For the phage work, a framework was developed to predict the disinfection rates in terms of the initial phage and bacterial concentrations. In addition, the long-term bacterial growth inhibition potential of multiple phages was determined for several bacteria. In regard to the phage application, phages were shown to protect both final product yields and yeast concentrations during fermentation. Taken together, this work suggests that the rational design of phage treatment is possible and further work is needed to expand on this foundation.

Characterization of immunoregulatory T lymphocytes during ageing by monoclonal antibodies.

Monoclonal antibodies of the OKT series were used to identify T lymphocytes (OKT3+) and their inducer (OKT4+) and suppressor-cytotoxic (OKT8+) subsets in the peripheral blood mononuclear cells (PBMC) of 32 healthy old-aged people more than 70 years old (16 men and 16 women) compared to 47 adults (29 men, 18 women) less than 40 years old. The absolute lymphocyte count in the peripheral blood was not significantly influenced by age or sex. Both the proportions and the absolute numbers of T3+ and T4+ cells were significantly lower in aged than in young participants. The proportions but not the absolute counts of OKT8+ cells were higher in the elderly. Most interesting is the influence of sex and these parameters. Old women have normal numbers and proportions of T3+, T4+ and T8+ cells when compared to young women. The latter have a significantly higher proportion of T8+ cells than young adult males. Old men have a striking reduction of both the numbers and proportions of OKT3+ and OKT4+ cells when compared with young men and with women. In addition, old men have an elevated proportion, but a normal absolute number, of OKT8+ cells. The responses of PBMC to phytohaemagglutinin extent (PHA), concanavalin A (Con A) and pokeweed mitogen (PWM) are reduced to the same extent in ageing male and female subjects when compared to young adults. In the older group, the magnitude of the lymphocyte response to PHA and Con A but not to PWM is negatively correlated with the proportions of OKT8+ cells. Surprisingly, these correlations are observed only in old women but not in old men. The latter finding excludes the possibility that the age-associated decline of the lymphocyte response to T cell mitogens is secondary to an imbalance between T4+ and T8+ lymphocytes.

Mancha Ojo de Rana (Cercospora sojina K. Hara) y su efecto sobre rendimiento y componentes industriales del grano de soja : proteína y aceite

La mancha ojo de rana (MOR), causada por Cercospora sojina K. Hara, se encuentra dentro del complejo de enfermedades fúngicas de fin de ciclo (EFC), que afectan al cultivo de soja (Glycine max (L.) Merr.) preferentemente en los estadíos reproductivos. Es una enfermedad común en la soja en la mayor parte de las regiones sojeras del mundo, incluyendo Argentina. Con los objetivos de (i) estudiar el efecto de MOR sobre rendimiento y calidad industrial del grano de soja y (ii) analizar la respuesta a distintos momentos de aplicación de estrobilurina+triazol durante el ciclo reproductivo del cultivo para disminuir el daño de esta enfermedad evitando pérdidas del rendimiento y de calidad del grano, se realizó un ensayo durante la campaña agrícola 2010-2011, en la localidad de Oncativo (Cordoba), que involucró 2 genotipos contrastantes en susceptibilidad a MOR. Se realizaron para cada cultivar cuatro tratamientos con una mezcla de triazol y estrobilurina: T1= aplicación en R3; T2= aplicación en R3+R5; T3= testigo enfermo (sin aplicación de fungicida) y T4= testigo sano (aplicacion cada 20 dias a partir de R1). Se determinó el nivel de incidencia y severidad de la enfermedad, rendimiento, número de grano por m2 (NGm2), peso de mil semillas (PMA), concentración de proteína (Pr) y aceite (Ac) del grano. Se observaron distintos niveles de severidad de MOR entre los tratamientos del cultivar DM3700. Todos los tratamientos que involucraron a DM3810 mostraron hojas sin manchas de MOR. Se encontró una correlación negativa entre la severidad de MOR y el rendimiento alcanzado por el cultivo. Los valores más elevados de severidad (37,3 por ciento de manchas foliares) se correspondieron con los rendimientos mas bajos (2117 kg ha-1) en el cultivar DM3700. Todos los tratamientos aplicados a DM3810 exhibieron los rendimientos mas elevados y no se diferenciaron estadisticamente entre si (3478 kg ha-1). DM3700 alcanzó rendimientos similares a DM3810 sólo cuando se aplicó la mezcla de fungicidas en T1 y T4, no diferenciándose entre si ambos tratamientos y mostrando un incremento en el rendimiento de aproximadamente 35,5 por ciento comparado con su testigo enfermo. Ambos componentes del rendimiento disminuyeron en el testigo enfermo DM3700; sin embargo, las reducciones en el NGm2 fueron más pronunciadas que las del PMAj y; por lo tanto, disminuciones en el NGm2 parecían ser el principal componente de la pérdida de rendimiento. No se observaron incrementos de rendimiento, NGm2 y/o PMAj atribuídos a la mezcla estrobilurinas + triazoles en los tratamientos que involucraron a DM3810 ante ausencia de MOR. La severidad máxima alcanzada por MOR en el genotipo mas susceptible (37,3 por ciento) de area foliar dañada en el tratamiento enfermo de DM3700) no fue suficiente como para causar disminución significativa en la acumulación del aceite. Según nuestro conocimiento este trabajo es el primero en demostrar que genotipos susceptibles a MOR disminuyen su rendimiento, pero no la calidad química del grano, si la severidad es . 37,3 por cientoy pueden ser controlados con una única aplicación de estrobilurina+triazol en R3. Concluyéndose que la elección de genotipos poco susceptibles a MOR (como DM3810) es efectiva para controlar C. sojina, sin beneficios adicionales en el rendimiento debidos a la aplicacion de fungicidas.

Conserva del palmito peruano como especialidad : estudio de caso de la Cooperativa APROPAL

La presente investigación tiene como objetivo principal identificar y describir los aspectos y factores en las que se apalancó la Cooperativa APROPAL a través de la Asociación de Productores para Palmito Alianza, para el éxito en la inserción comercial del palmito en conserva como especialidad en los mercados más exigentes del mundo. La metodología utilizada fue el análisis estructural discreto a través del estudio de caso, se utilizó fuentes de información primaria y secundaria. En el enfoque teórico se desarrolló el modelo de las tres vías como son: vía del ambiente institucional, vía de la moderna organización industrial y vía de la estructura de gobernancia. Los resultados obtenidos en el ambiente institucional informal mostraron que el gran nivel de acción colectiva por parte de los productores les permitió trabajar en forma conjunta con una mejor capacidad de respuesta ante las perturbaciones pasadas, sumado a ello las reglas de juego formales estable con políticas orientadas a impulsar la inversión, y fomento de las exportaciones. En la vía de la Moderna Organización Industrial, se obtuvo como resultado, que las características del producto satisfacen las exigencias de la demanda internacional y con una tendencia creciente del consumo a nivel nacional. La variedad Bactris Gasipaes H.B.K del pijuayo, el know how propio de la empresa, y la clasificación de la conserva de palmito como un producto gourmet, y la marca comercial, lograron insertarlo dentro de la línea de productos de especialidades. En las exportaciones del 2014, la empresa se consolidó nuevamente como líder dentro del mercado nacional. Dentro de los resultados obtenidos en el análisis de las Estructuras de Gobernancia, en la transacción APROPAL-Bróker (T3) se viene generando cuasi rentas expropiables, motivo por el cual la empresa actualmente viene realizando estrategias para establecer relaciones alineadas entre AROPAL-Supermercados (T4), de tal manera de independizar parcialmente el servicio de los intermediarios.

Reacción en plántula a oidio Blumeria graminis f. sp. tritici de cultivares de trigo tetraploide, cultivares diferenciales y especies emparentadas con trigo

p.111-117

Efectividad de tratamientos químicos para el control de cebollín (Cyperus rotundus L.) en soja (Glycine max (L.) Merril)

p.263-267

Ocurrencia de micorrizas en plantas de maíz, soja y trigo en sistemas de siembra directa

p.67-72

Evaluación de terneza de reses de novillos Hereford bajo distintos modelos de invernada en el partido de Carlos Casares

p.77-85