Modeling the distribution of crossovers and interference with mice DNA data

Chiasma and crossover are two related biological processes of great importance in the understanding genetic variation. The study of these processes is straightforward in organisms where all products of meiosis are recovered and can be observed. This is not the case in mammals. Our understanding of these processes depends on our ability to model them. In this study I describe the biological processes that underline chiasma and crossover as well as the two main inference problems associated with these processes: i) in mammals we only recover one of the four products of meiosis and, ii) in general, we do not observe where the crossovers actually happen, but we find an interval containing type-2 censored information. NPML estimate was proposed and used in this work and used to compare chromosome length and chromosome expansion through the crosses.

Analysis of N-nitrosames in water using micellar electrokinetic chromatography (MEKC) and development of online and offline methods of extraction and enrichment of neutral polar analytes

Evaluation of the quality of the environment is essential for human wellness as pollutants in trace amounts can cause serious health problem. Nitrosamines are a group of compounds that are considered potential carcinogens and can be found in drinking water (as disinfection byproducts), foods, beverages and cosmetics. To monitor the level of these compounds to minimize daily intakes, fast and reliable analytical techniques are required. As these compounds are relatively highly polar, extraction and enrichment from environmental samples (aqueous) are challenging. Also, the trend of analytical techniques toward the reduction of sample size and minimization of organic solvent use demands new methods of analysis. In light of fulfilling these requirements, a new method of online preconcentration tailored to an electrokinetic chromatography is introduced. In this method, electroosmotic flow (EOF) was suppressed to increase the interaction time between analyte and micellar phase, therefore the only force to mobilize the neutral analytes is the interaction of analyte with moving micelles. In absence of EOF, polarity of applied potential was switched (negative or positive) to force (anionic or cationic) micelles to move toward the detector. To avoid the excessive band broadening due to longer analysis time caused by slow moving micelles, auxiliary pressure was introduced to boost the micelle movement toward the detector using an in house designed and built apparatus. Applying the external auxiliary pressure significantly reduced the analysis times without compromising separation efficiency. Parameters, such as type of surfactants, composition of background electrolyte (BGE), type of capillary, matrix effect, organic modifiers, etc., were evaluated in optimization of the method. The enrichment factors for targeted analytes were impressive, particularly; cationic surfactants were shown to be suitable for analysis of nitrosamines due to their ability to act as hydrogen bond donors. Ammonium perfluorooctanoate (APFO) also showed remarkable results in term of peak shapes and number of theoretical plates. It was shown that the separation results were best when a high conductivity sample was paired with a BGE of lower conductivity. Using higher surfactant concentrations (up to 200 mM SDS) than usual (50 mM SDS) for micellar electrokinetic chromatography (MEKC) improved the sweeping. A new method for micro-extraction and enrichment of highly polar neutral analytes (N-Nitrosamines in particular) based on three-phase drop micro-extraction was introduced and its performance studied. In this method, a new device using some easy-to-find components was fabricated and its operation and application demonstrated. Compared to conventional extraction methods (liquid-liquid extraction), consumption of organic solvents and operation times were significantly lower.

Simulating the effects of vegetation and landscape structure on fire behavior in northeastern Portugal: the case of holm oak (Quercus rotundifolia)

O fogo é um processo frequente nas paisagens do norte de Portugal. Estudos anteriores mostraram que os bosques de azinheira (Quercus rotundifolia) persistem após a passagem do fogo e ajudam a diminuir a sua intensidade e taxa de propagação. Os principais objetivos deste estudo foram compreender e modelar o efeito dos bosques de azinheira no comportamento do fogo ao nível da paisagem da bacia superior do rio Sabor, localizado no nordeste de Portugal. O impacto dos bosques de azinheira no comportamento do fogo foi testado em termos de área e configuração de acordo com cenários que simulam a possível distribuição destas unidades de vegetação na paisagem, considerando uma percentagem de ocupação da azinheira de 2.2% (Low), 18.1% (Moderate), 26.0% (High), e 39.8% (Rivers). Estes cenários tiveram como principal objetivo testar 1) o papel dos bosques de azinheira no comportamento do fogo e 2) de que forma a configuração das manchas de azinheira podem ajudar a diminuir a intensidade da linha de fogo e área ardida. Na modelação do comportamento do fogo foi usado o modelo FlamMap para simular a intensidade de linha do fogo e taxa de propagação do fogo com base em modelos de combustível associados a cada ocupação e uso do solo presente na área de estudo, e também com base em fatores topográficos (altitude, declive e orientação da encosta) e climáticos (humidade e velocidade do vento). Foram ainda usados dois modelos de combustível para a ocupação de azinheira (áreas interiores e de bordadura), desenvolvidos com base em dados reais obtidos na região. Usou-se o software FRAGSATS para a análise dos padrões espaciais das classes de intensidade de linha do fogo, usando-se as métricas Class Area (CA), Number of Patches (NP) e Large Patches Index (LPI). Os resultados obtidos indicaram que a intensidade da linha de fogo e a taxa de propagação do fogo variou entre cenários e entre modelos de combustível para o azinhal. A intensidade média da linha de fogo e a taxa média de propagação do fogo decresceu à medida que a percentagem de área de bosques de azinheira aumentou na paisagem. Também foi observado que as métricas CA, NP e LPI variaram entre cenários e modelos de combustível para o azinhal, decrescendo quando a percentagem de área de bosques de azinheira aumentou. Este estudo permitiu concluir que a variação da percentagem de ocupação e configuração espacial dos bosques de azinheira influenciam o comportamento do fogo, reduzindo, em termos médios, a intensidade da linha de fogo e a taxa de propagação, sugerindo que os bosques de azinhal podem ser usados como medidas silvícolas preventivas para diminuir o risco de incêndio nesta região.

Using Causal Models for the Calculation of Direct and Indirect Effects: An Example From Occupational Health

International audience

Map of Newark and East Newark, N.J. from the most authentic surveys.

Scale ca. 1:48,000.

Sedimentary archives of climate and sea-level changes during the Holocene in the Rhone prodelta (NW Mediterranean Sea)

A 7.38 m-long sediment core was collected from the eastern part of the Rhone prodelta (NW Mediterranean) at 67 m water depth. A multi-proxy study (sedimentary facies, benthic foraminifera and ostracods, clay mineralogy, and major elements from XRF) provides a multi-decadal to century-scale record of climate and sea-level changes during the Holocene. The early Holocene is marked by alternative silt and clay layers interpreted as distal tempestites deposited in a context of rising sea level. This interval contains shallow infra-littoral benthic meiofauna (e.g. Pontocythere elongata, Elphidium spp., Quinqueloculina lata) and formed between ca. 20 and 50 m water depth. The middle Holocene (ca. 8.3 to 4.5 ka cal. BP), is characterized, at the core site, by a period of sediment starvation (accumulation rate of ca. 0.01 cm yr−1) resulting from the maximum landward shift of the shoreline and the Rhone outlet(s). From a sequence stratigraphic point of view, this condensed interval, about 35 cm-thick, is a Maximum Flooding Surface that can be identified on seismic profiles as the transition between delta retrogradation and delta progradation. It is marked by very distinct changes in all proxy records. Following the stabilization of the global sea level, the late Holocene is marked by the establishment of prodeltaic conditions at the core site, as shown by the lithofacies and by the presence of benthic meiofauna typical of the modern Rhone prodelta (e.g. Valvulineria bradyana, Cassidulina carinata, Bulimina marginata). Several periods of increased fluvial discharge are also emphasized by the presence of species commonly found in brackish and shallow water environments (e.g. Leptocythere). Some of these periods correspond to the multi-decadal to centennial late Holocene humid periods recognized in Europe (i.e. the 2.8 ka event and the Little Ice Age). Two other periods of increased runoffs at ca. 1.3 and 1.1 ka cal. BP are recognized, and are likely to reflect periods of regional climate deterioration that are observed in the Rhone watershed.

A survey of the northern neck of Virginia, being the lands belonging to the Rt. Honourable Thomas Lord Fairfax Baron Cameron, bounded by & within the Bay of Chesapoyocke and between the rivers Rappahannock and Potowmack: With the courses of the rivers Rappahannock and Potowmack, in Virginia, as surveyed according to order in the years 1736 & 1737.

Scale ca. 1:875,000.

Downstream emissions of CH4 and CO2 from hydroelectric reservoirs (Tucuruí, Samuel, and Curuá-Una) in the Amazon basin.

Carbon dioxide (CO2) and methane (CH4) generated in reservoirs are released downstream of dams, and few studies have considered these downstream emissions. Fluxes downstream of 3 Amazon hydroelectric reservoirs (Tucuruí, Samuel, and Curuá-Una) are reported here. Degassing through turbines was calculated as the difference between intake and outflow concentrations. Additional releases along the Tocantins, Jamari, and Curuá rivers were measured at were liberated at the turbine outflow. The total downstream emissions are sufficiently large to require consideration in assessments of greenhouse gas emissions from hydroelectric reservoirs.

Effect of fertilization and type of pruning on quality of fresh and dehydrated Stevia rebaudiana

Mestrado em Engenharia Alimentar - Instituto Superior de Agronomia - UL

Manifestations of Stigma and Prejudice Informed by Treated Lepers

Introduction: The segregation of people affected by leprosy in lepercolonies as well as presenting itself ineffective, caused irreversible and irreparable consequences in the lives of individuals who came to carry the marks of stigma and prejudice surrounding the disease. Objective: To identify traits related to the stigma and prejudice in the content of lepers' 12 speeches, separated compulsorily in Saint Francis of Assisi Colony in the city of Natal, located in the state of Rio Grande do Norte. Method: Descriptive study focusing on the oral history of life. The narratives were collected in April 2010 through a recorded interview and analyzed by means of the technique of Thematic Content Analyses. Results: The stigma and the prejudice crystallized in our culture had caused and still cause huge suffering and pain in the participants, who grew up and several aged in biological terms, living with a stigmatizing disease and its complications, sometimes disabling ones. In social and psychological terms, they were discriminated, rejected and even expelled from the familiar conviviality and the original social nucleus. Conclusion: In this manner, one notices the need of these people recover their attachments, values and self-esteem, share feelings and build relationships so as to be integrated in the real world.