Strategies for genotype imputation in composite beef cattle

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Estudo de associação entre polimorfismos de base única com características de eficiência de conversão, consumo e desempenho em bovinos da raça Nelore

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

The homeostasis of iron, copper, and zinc in paracoccidioides brasiliensis, cryptococcus neoformans var. Grubii, and cryptococcus gattii: a comparative analysis

Iron, copper, and zinc are essential for all living organisms. Moreover, the homeostasis of these metals is vital to microorganisms during pathogenic interactions with a host. Most pathogens have developed specific mechanisms for the uptake of micronutrients from their hosts in order to counteract the low availability of essential ions in infected tissues. We report here an analysis of genes potentially involved in iron, copper, and zinc uptake and homeostasis in the fungal pathogens Paracoccidioides brasiliensis, Cryptococcus neoformans var. grubii, and Cryptococcus gattii. Although prior studies have identified certain aspects of metal regulation in Cryptococcus species, little is known regarding the regulation of these elements in P. brasiliensis. We also present amino acid sequences analyses of deduced proteins in order to examine possible conserved domains. The genomic data reveals, for the first time, genes associated to iron, copper, and zinc assimilation and homeostasis in P. brasiliensis. Furthermore, analyses of the three fungal species identified homologs to genes associated with high-affinity uptake systems, vacuolar and mitochondrial iron storage, copper uptake and reduction, and zinc assimilation. However, homologs to genes involved in siderophore production were only found in P. brasiliensis. Interestingly, in silico analysis of the genomes of P. brasiliensis Pb01, Pb03, and Pb18 revealed significant differences in the presence and/or number of genes involved in metal homeostasis, such as in genes related to iron reduction and oxidation. The broad analyses of the genomes of P. brasiliensis, C. neoformans var. grubii, and C. gattii for genes involved in metal homeostasis provide important groundwork for numerous interesting future areas of investigation that are required in order to validate and explore the function of the identified genes and gene pathways.

Arquitetura de um sistema multiagente autônomo para supervisão e controle

This paper presents a multi-agent architecture that was designed to develop processes supervision and control systems, with the main objective to automate tasks that are repetitive and stressful, and error prone when performed by humans. A set of agents were identified, based on the study of a number of applications found in the literature, that use the approach of multi-agent systems for data integration and process monitoring to faults detection and diagnosis, these agents are used as basis of the proposed multi-agent architecture. A prototype system for the analysis of abnormalities during oil wells drilling was developed.

Estrutura genômica de uma população de suínos base Landrace

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Mapeamento de ocorrências de eventos perigosos no município de Santos SP: integração com dados de vulnerabilidade socioambiental

This study is based on the mapping of occurrences associated with social vulnerability and natural risks, which refer to the resilience of populations and territories, regarding natural hazards associated with the functioning of natural systems (eg, earthquakes, flood, mass movements). According to UNISDR (2014), the state of São Paulo is a reference in working with Urban Resilience and Disaster in the Resilient Cities Campaign (2014), considering the high investment in Risk Areas Mapping and Public Education Campaigns implemented by the Civil Defense. Thus, this study aims to mapping the occurrence of events related to Tree Falls, Erosion, Landslides, Irregular Housing, Rocky Blocks Falls, Wall Falls, Unroofing and Irregular Construction, attended by the Civil Defense in the city of Santos, São Paulo State, from 2011 to 2014. Thereafter, correlated analyzes to the Environmental Vulnerabilities were generated. The Environmental Vulnerability databases used in this dissertation compose the results of the CNPQ Project - Environmental Vulnerability Mapping of the State of Sao Paulo - Brazil: a methodological contribution of Freitas (2013) and Bortolettoet al (2014), with information collected from the 2010 Census (IBGE, 2010), on a census sectors scale. The adopted methodological procedure involves document analysis followed by data integration in Geographic Information System, through algorithms analysis and mapscrossing.The results obtained in Maps of Social and Environmental Vulnerability Occurrences presented areas of High or Very High Vulnerability. The main variables obtained with such characteristics are Irregular Housing, Landslides and Rocky Blocks Falls, which was associated with hilly terrain formations, with slopes above 30%. To the areas of Medium, Low and Very Low Vulnerability were associated the variables Tree Falls, Wall Falls, Erosion, Unroofing and Irregular Construction, which are spatially distributed without an...

Framework para integração semântica de dados geoespaciais: integração de dados geológicos

Pós-graduação em Ciência da Computação - IBILCE

Utilização de imagem de satélite Landsat no mapeamento da ocupação da terra e seus conflitos de uso em APPs na bacia hidrográfica do ribeirão Paraíso - São Manuel (SP)

The objectives of this study were to evaluate land use and occupation of Permanent Preservation Areas (PPA) as well as its use conflicts by TM (Thematic Mapper) image of the 2010 Landsat-5 satellite, according to the Forest Code. For that purpose, Geographic Information Systems in the Ribeirão Paraíso watershed, São Manuel, SP were used. The combination of Remote Sensing and Geographic Information System technologies allowed representation of spatial distribution of the landscape and data integration in the diagnosis of geographic interest. The 2010 mapping showed 12 use categories, and the sugar cane crop had the largest land occupation, 48.25% of the area. The areas of permanent preservation amounted to 925.74 ha, which is an ideal value based on the Brazilian legislation. Mapping of land use conflicts showed intensive anthropic actions going 80.13% forward on PPAs, with only 19.87% remaining forests, which highlights their negative impact and illegal situations in these areas.

Análise multicriterial aplicado na definição de áreas prioritárias ao uso agrícola da terra da bacia do Rio Capivara, Botucatu, SP

The use of geographic information systems (GIS), combined with advanced analysis technique, enables the standardization and data integration, which are usually from different sources, allowing you to conduct a joint evaluation of the same, providing more efficiency and reliability in the decision-making process to promote the adequacy of land use. This study aimed to analyze the priority areas of the basin agricultural use of the Capivara River, Botucatu, SP, through multicriterial analysis, aiming at conservation of water resources. The results showed that the Geographic Information System Idrisi Selva combined with advanced analysis technique and the weighted linear combination method proved to be an effective tool in the combination of different criteria, allowing the determination of the adequacy of agricultural land use less subjective way. Environmental criteria were shown to be suitable for the combination and multi-criteria analysis, allowing the preparation of the statement of suitability classes for agricultural use and can be useful for regional planning and decision-making by public bodies and environmental agents because the method takes into account the rational use of land and allowing the conservation of hydrics resources.

Identificação taxonômica e análise conexionista de bactérias heterotróficas e fatores abióticos de ambientes lóticos sob influência de efluentes do refino no petróleo

This study used a multi-analytical approach based on traditional microbiological methods for cultivation and isolation of heterotrophic bacteria in the laboratory associated with the molecular identification of the isolates and physicochemical analysis of environmental samples. The model chosen for data integration was supported by knowledge from computational neuroscience, and composed by three modules: (i) microbiological parameters, contemplating taxonomic data obtained from the partial sequencing of the 16S rRNA gene from 80 colonies of heterotrophic bacteria isolated by plating method in PCA media. For bacterial colonies isolation were used water samples from Atibaia and Jaguarí rivers collected at the site of water captation for use in effluent treatment, upstream from the entrance of treated effluent from the Paulínia refinery (REPLAN/Petrobras) located in the Paulínia-SP municipality, from the output of the biological treatment plant with stabilization pond and from the raw refinery wastewater; (ii) chemical parameters, ending measures of dissolved oxygen (DO), chemical oxygen demand (COD), biochemical oxygen demand (BOD), chloride, acidity CaCO3, alkalinity, ammonia, nitrite, nitrate, dissolved ions, sulfides, oils and greases; and (iii) physical parameters, comprising the pH determination, conductivity, temperature, transparency, settleable solids, suspended and soluble solids, volatile material, remaining fixing material (RFM), apparent color and turbidity. The results revealed interesting theoretical relationships involving two families of bacteria (Carnobacteriaceae and Aeromonadaceae). Carnobacteriaceae revealed positive theoretical relationships with COD, BOD, nitrate, chloride, temperature, conductivity and apparent color and negative theoretical relationships with the OD. Positive theoretical relationships were shown between Aeromonadaceae and OD and nitrate, while this bacterial family showed negative theoretical...

Diagnóstico e avaliação ambiental das nascentes da Serra dos Matões, município de Pedro II, Piauí

Pós-graduação em Geografia - IGCE

Identificação taxonômica e análise conexionista de bactérias heterotróficas e fatores abióticos de ambientes lóticos sob influência de efluentes do refino no petróleo

This study used a multi-analytical approach based on traditional microbiological methods for cultivation and isolation of heterotrophic bacteria in the laboratory associated with the molecular identification of the isolates and physicochemical analysis of environmental samples. The model chosen for data integration was supported by knowledge from computational neuroscience, and composed by three modules: (i) microbiological parameters, contemplating taxonomic data obtained from the partial sequencing of the 16S rRNA gene from 80 colonies of heterotrophic bacteria isolated by plating method in PCA media. For bacterial colonies isolation were used water samples from Atibaia and Jaguarí rivers collected at the site of water captation for use in effluent treatment, upstream from the entrance of treated effluent from the Paulínia refinery (REPLAN/Petrobras) located in the Paulínia-SP municipality, from the output of the biological treatment plant with stabilization pond and from the raw refinery wastewater; (ii) chemical parameters, ending measures of dissolved oxygen (DO), chemical oxygen demand (COD), biochemical oxygen demand (BOD), chloride, acidity CaCO3, alkalinity, ammonia, nitrite, nitrate, dissolved ions, sulfides, oils and greases; and (iii) physical parameters, comprising the pH determination, conductivity, temperature, transparency, settleable solids, suspended and soluble solids, volatile material, remaining fixing material (RFM), apparent color and turbidity. The results revealed interesting theoretical relationships involving two families of bacteria (Carnobacteriaceae and Aeromonadaceae). Carnobacteriaceae revealed positive theoretical relationships with COD, BOD, nitrate, chloride, temperature, conductivity and apparent color and negative theoretical relationships with the OD. Positive theoretical relationships were shown between Aeromonadaceae and OD and nitrate, while this bacterial family showed negative theoretical...

Diagnóstico e avaliação ambiental das nascentes da Serra dos Matões, município de Pedro II, Piauí

Pós-graduação em Geografia - IGCE

Integrated sediment quality assessment in Paranagua Estuarine System, Southern Brazil

Sediment quality from Paranagua Estuarine System (PES), a highly important port and ecological zone, was evaluated by assessing three lines of evidence: (1) sediment physical-chemical characteristics; (2) sediment toxicity (elutriates, sediment-water interface, and whole sediment); and (3) benthic community structure. Results revealed a gradient of increasing degradation of sediments (i.e. higher concentrations of trace metals, higher toxicity, and impoverishment of benthic community structure) towards inner PES. Data integration by principal component analysis (PCA) showed positive correlation between some contaminants (mainly As, Cr, Ni, and Pb) and toxicity in samples collected from stations located in upper estuary and one station placed away from contamination sources. Benthic community structure seems to be affected by both pollution and natural fine characteristics of the sediments, which reinforces the importance of a weight-of-evidence approach to evaluate sediments of PES. (C) 2008 Elsevier Inc. All rights reserved.

A novel XML document structure comparison framework based-on sub-tree commonalities and label semantics

XML similarity evaluation has become a central issue in the database and information communities, its applications ranging over document clustering, version control, data integration and ranked retrieval. Various algorithms for comparing hierarchically structured data, XML documents in particular, have been proposed in the literature. Most of them make use of techniques for finding the edit distance between tree structures, XML documents being commonly modeled as Ordered Labeled Trees. Yet, a thorough investigation of current approaches led us to identify several similarity aspects, i.e., sub-tree related structural and semantic similarities, which are not sufficiently addressed while comparing XML documents. In this paper, we provide an integrated and fine-grained comparison framework to deal with both structural and semantic similarities in XML documents (detecting the occurrences and repetitions of structurally and semantically similar sub-trees), and to allow the end-user to adjust the comparison process according to her requirements. Our framework consists of four main modules for (i) discovering the structural commonalities between sub-trees, (ii) identifying sub-tree semantic resemblances, (iii) computing tree-based edit operations costs, and (iv) computing tree edit distance. Experimental results demonstrate higher comparison accuracy with respect to alternative methods, while timing experiments reflect the impact of semantic similarity on overall system performance.