CISR-ODE, A C plus plus framework with ODE solver for code based system dynamics simulation

Ordinary differential equations are used for modelling a wide range of dynamic systems. Even though there are many graphical software applications for this purpose, a fully customised solution for all problems is code-level programming of the model and solver. In this project, a free and open source C++ framework is designed to facilitate modelling in native code environment and fulfill the common simulation needs of control and many other engineering and science applications. The solvers of this project are obtained from ODEINT and specialised for Armadillo matrix library to provide an easy syntax and a fast execution. The solver code is minimised and its modification for users have become easier. There are several features added to the solvers such as controlling maximum step size, informing the solver about sudden input change and forcing custom times into the results and calling a custom method at these points. The comfort of the model designer, code readability, extendibility and model isolation have been considered in the structure of this framework. The application manages the output results, exporting and plotting them. Modifying the model has become more practical and a portion of corresponding codes are updated automatically. A set of libraries is provided for generation of output figures, matrix hashing, control system functions, profiling, etc. In this paper, an example of using this framework for a classical washout filter model is explained.

Preferência alimentar e identificação das principais fontes de repasto sanguíneo de fêmeas Lutzomyia (Diptera: Psychodidae) em áreas endêmicas para leishmaniose visceral na grande Natal

Leishmaniasis are endemic diseases wild spread in the New and Old World, caused by the flagelated protozoan Leishmania. In the New World, the distribution of different forms of leishmaniasis is mostly in tropical regions. In the State of Rio Grande do Norte, Northeast Brazil, 85% of the captured sand flies fauna is Lutzomyia longipalpis. The distribution of the sand fly vector in the state overlaps with the disease distribution, where the presence of sand flies is associated with presence of animals shelters. The aim of this study was to analyse the blood meal preference of sand flies vector from the genus Lutzomyia spp. in laboratory conditions, to verify the vector life cicle at different temperatures sets and to identify the main blood meal source in endemic areas for visceral leishmaniasis (VL) at peri-urban regions of Natal. Sand flies samples were collected from the municipalities of São Gonçalo do Amarante and Nísia Floresta where female sand flies were grouped for the colony maintenance in the laboratory and for the analysis of the preferred source of sand fly blood meal in natural environment. The prevalence of blood meal preference and oviposition for the females sand flies was 97% for Cavia porcellus with oviposition of 19 eggs/female; 97% for Eqqus caballus with 19 eggs/female; 98% for human blood with 14 eggs/female; 71.3% for Didelphis albiventris with 8.4 eggs/female; 73% for Gallus gallus with 14 eggs/female; 86% for Canis familiaris with 10.3 eggs/female; 81.4% for Galea spixii with 26 eggs/female; 36% for Callithrix jachus with 15 eggs/female; 42.8% for Monodelphis domestica with 0% of oviposition. Female sand flies did not take a blood meal from Felis catus. Sand flies life cycle ranged from 32-40 days, with 21-50 oviposition rates approximately. This study also showed that at 32°C the life cycle had 31 days, at 28° C it had 50 days and at 22°C it increased to 79 days. Adjusting the temperature to 35°C the eggs did not hatch, thus blocking the life cycle. A total of 1540 sand flies were captured, among them, 1.310 were male and 230 were female. Whereas 86% of the sand flies captured were Lu. longipalpis as compared to 10.5% for Lu. evandroi and, 3.2% for L. lenti and 0.3% for Lu whitmani. The ratio between female and male sandfly was approximately 6 males to 1 female. In Nísia Floresta, 50.7% of the collected females took their blood meal from armadillo, 12.8% from human. Among the female sand flies captured in São Gonçalo do Amarante, 80 of them were tested for the Leishmania KDNA infectivity where 5% of them were infected with Leishmania chagasi. Female Lutzomyia spp. showed to have an opportunistic blood meal characteristic. The behavioral parameters seem to have a higher influence in the oviposition when compared to the level of total proteins detected in the host s bloodstream. A higher Lu. longipalpis life cycle viability was observed at 28°C. The increase of temperature dropped the life cycle time, which means that the life cycle is modified by temperature range, source of blood meal and humidity. Lu longipalpis was the most specie found in the inner and peridomiciliar environment. In Nísia Floresta, armadillos were the main source of blood meal for Lutzomyia spp. At São Gonçalo do Amarante, humans were the main source of blood meal due to CDC nets placed inside their houses

Microscopic features of tick-bite lesions in anteaters and armadillos - Emas National Park and the Pantanal region of Brazil

The naturally occurring wildlife host associations between ticks and tick-borne pathogens found in the neotropics are poorly described. Understanding tick-bite lesions is important as these are the site of host reaction to and pathogen delivery by ticks. As part of a comprehensive study concerning established and emerging tick-host relationships. The present work describes some aspects of tick-bite lesions in anteaters and armadillos captured at the Emas National Park and the Pantanal region of Brazil. Biopsies were of skin were taken and examine. Tick feeding sites of all animals displayed an eosinophilic homogeneous mass, the cement cone, and, occasionally, a feeding cavity underneath the tick attachment site. At these locations the epidermis was usually thickened due to keratinocyte hyperplasia. The main dermal changes included tissue infiltration with a varying number of inflammatory cells, edema, hemorrhage. and vascular dilatation. Cellular infiltration of the dermis was predominantly composed of mononuclear cells, neutrophils. and eosinophils. Mast cells were also seen in both non-parasitized and parasitized skin but were found in higher numbers at perivascular sites and in parasitized skin. Basophils were not seen at tick attachment sites of anteaters or armadillos.

Paracoccidioides brasiliensis isolated from armadillos is virulent to Syrian hamsters

Isolates of Paracoccidioides brasiliensis may vary in virulence according to time of in vitro subcultivation. The present study compared the morphology and pathogenicity to hamsters of two P. brasiliensis isolates: one obtained from human lesions and maintained in the laboratory for several years (Pb-18) and the other isolate recovered from hamsters inoculated with organ homogenates from armadillos (Pb-T). The microscopic morphology of Pb-18 and Pb-T showed yeast cells with similar diameter. However, Pb-T produced a significantly higher number of buds per mother cell than Pb-18. Besides, the mycelial form of Pb-T developed abundant sporulation during 8 weeks of culture which was absent in the Pb-18 isolate. Virulence studies demonstrated that mortality rates, antibody levels, fungal load and extent of lesions in the organs were significantly higher in animals infected with Pb-T. The results demonstrated that Pb-T recently isolated from an animal was more virulent than Pb-18. These differences between the two P. brasillensis isolates may be indicators of virulence attenuation in this fungal species.

Ecological study of Paracoccidioides brasiliensis in soil: growth ability, conidia production and molecular detection

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

Molecular detection of Paracoccidioides brasiliensis in soil

The objective of the present study was to evaluate different techniques for the detection of Paracoccidioides brasiliensis in soil, e.g., culture, animal inoculation and specific DNA amplification by Nested PCR. We designed species-specific inner primers derived from rDNA regions (ITS, 5.8S gene) and found their sensitivity to be higher than culture and animal inoculation. In addition, the sensitivity of these primers was higher than p27-gene primers developed for detection of P brasiliensis in soil in a previous study. DNA from P brasiliensis was detected in soil artificially seeded with the fungus (positive soil control) and from environmental samples collected in an armadillo burrow.

Contribuição ao Conhecimento da Distribuição Geográfica do Tatu-de-Rabo-Mole-Grande Cabassous tatouay no Brasil: Revisão, Status e Comentários sobre a Espécie

The greater naked-tailed armadillo Cabassous tatouay is one of the least-known armadillo species. Field records are rare, if not controversial, and only few specimens exist in scientific collections in Brazil. This species is listed in the Brazilian Red List of Threatened Species as well as in six official Brazilian state Red Lists. Fieldwork was performed between 2005 and 2008 to monitor wildlife in the central-western region of São Paulo State. Cabassous tatouay was registered in three opportunities, in the municipalities of Agudos, Borebi and Avare, and ecological and morphometrical data were registered. Although this species tolerates altered habitats, the scarce field records may be related to its habits and have led to the lack of basic information on greater naked-tailed armadillos. This communication provides important ecological and biogeographical information about C. tatouay.

Isolation of fungi from nature in the region of Botucatu, state of São Paulo, Brazil, an endemic area of paracoccidioidomycosis

In an attempt to isolate Paracoccidioides brasiliensis from nature 887 samples of soil from Botucatu, SP, Brazil, were collected cultured in brain heart infusion agar supplemented with dextrose, in potato dextrose agar and in yeast extract starch dextrose agar, all with antibiotics, at 25º and 37ºC. Five thermo-dependent dimorphic fungi morphologically resembling P. brasiliensis were isolated; two from armadillo holes; further studies of the biology, antigenicity and genetic features of the five dimorphic fungi are necessary to clarify their taxonomy and their possible relation to P. brasiliensis. In addition, 98 dematiaceous fungi and 581 different species of Aspergillus spp. were also isolated. Our findings emphasize that armadillos and their environment are associated with thermo-dimorphic fungi and confirm the ubiquity of pathogenic dematiaceous fungi and Aspergillus spp.

Jaguar (Panthera onca) food habits in Atlantic rain forest of southeastern Brazil

Between January and December 1996, the food habits of a relict population of jaguars were studied in 220 km(2) Linhares Forest Preserve, which comprises much of the remaining old-growth Atlantic Forest of Espirito Santo, Brazil. Fecal analysis indicated opportunistic feeding on 24 prey species (N = 101 scats). Mammals represented 87 percent of the total items, followed by reptiles (9.8%) and birds (2.8%). Considering prey weight, 23.4 percent of the items weighed 1-3 kg, 40.5 percent were 3-10 kg, and 27.7 percent weighed more than 10 kg. Analysis of relative prey frequency and biomass indicated that the diet was concentrated in two prey types: long-nosed armadillo and white-lipped peccary. Literature data suggest that forest jaguars rely on the same mammal prey over their entire geographic range.

Density and population size of mammals introduced on a land-bridge island in southeastern Brazil

The introduction of alien species is one of the main threats to the conservation of native species, especially in island ecosystems. Here, we report on the population growth of 15 species of mammals introduced in 1983 on the island of Anchieta, an 828 ha land-bridge island in southeastern Brazil. We estimated the density of mammals through 296 km of line transect census. Five species introduced became extinct (coypu, brocket deer, six-banded armadillo, nine-banded armadillo, maned three-toed sloth); six became over-abundant (marmoset, coati, agouti, seven-banded armadillo, and capybara); one has a stable population (capuchin monkey). Anchieta Island has the highest density of mammals in the entire Atlantic forest (486.77 ind/km(2)), especially nest predators (232.83 ind/km(2)) and herbivores (253.58 ind/km(2)). Agoutis (Dasyprocta spp.) and marmosets (Callithrix penicillata) were, by far, the species with the highest population growth. The high density of mammals in this island may have strong consequences for plant recruitment and bird diversity.

Comparative phylogeography of Trypanosoma cruzi TCIIc: New hosts, association with terrestrial ecotopes, and spatial clustering

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Evolução cromossômica na Ordem Xenarthra

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Using captive sentinels to collect wild triatomines in the region of Marília-SP, Brasil

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

Ecologia alimentar de Tatu-Peba, Euphractus sexcinctus (Linnaeus, 1758), na Fazenda Nhumirim, Pantanal da Nhecolância, MS

Studies on feeding ecology are important tools for the understanding of feeding strategies and niche dynamics. Information on the type of food consumed, how, and where it is acquired, enable the elucidation of species behavioral, evolutionary and ecological aspects. The diet study based on fecal material enables a low-cost, informative research and avoids the sacrifice of animals. The general aim of this study is to characterize the diet of Euphractus sexcinctus, the yellow-armadillo, based on fecal samples, to contribute with additional information on their feeding habits. The study was undertaken at the Nhumirim ranch, Pantanal da Nhecolândia, MS, during the months of February and March, 2014. The fecal material was collected during the manual capture of the animals and oven dried at 60°C. The food items found in the feces were sorted using a magnifying glass and separated in the following categories: plant matter, invertebrates and soil. Invertebrates were identified to the order level and the plant matter to the lowest taxonomic level possible. Aiming to evaluate the invertebrate availability in the soil, pitfall traps were installed next to the location where individuals were captured, during the months of April and May. We were able to estimate the frequency with which item was consumed during the studied period, and if there is a relationship between the frequency of consumed invertebrates and their availability environment. Among the analyzed samples, we could observe the frequency of occurrence (FO) of plant matter, invertebrates and soil in all the samples. The main invertebrate orders found in the samples were: Coleoptera, Orthoptera and Hymenoptera, with FO of 100%, 100% and 87,5%, respectively. Seeds were found in 100% of the samples. The FO of the Byrsonima orbignyana was high (62,5%), and evidences the potential of the yellow-armadillos as seed dispersers. The use of other techniques, such as the micro-histological...

Ecologia alimentar de Tatu-Peba, Euphractus sexcinctus (Linnaeus, 1758), na Fazenda Nhumirim, Pantanal da Nhecolância, MS

Studies on feeding ecology are important tools for the understanding of feeding strategies and niche dynamics. Information on the type of food consumed, how, and where it is acquired, enable the elucidation of species behavioral, evolutionary and ecological aspects. The diet study based on fecal material enables a low-cost, informative research and avoids the sacrifice of animals. The general aim of this study is to characterize the diet of Euphractus sexcinctus, the yellow-armadillo, based on fecal samples, to contribute with additional information on their feeding habits. The study was undertaken at the Nhumirim ranch, Pantanal da Nhecolândia, MS, during the months of February and March, 2014. The fecal material was collected during the manual capture of the animals and oven dried at 60°C. The food items found in the feces were sorted using a magnifying glass and separated in the following categories: plant matter, invertebrates and soil. Invertebrates were identified to the order level and the plant matter to the lowest taxonomic level possible. Aiming to evaluate the invertebrate availability in the soil, pitfall traps were installed next to the location where individuals were captured, during the months of April and May. We were able to estimate the frequency with which item was consumed during the studied period, and if there is a relationship between the frequency of consumed invertebrates and their availability environment. Among the analyzed samples, we could observe the frequency of occurrence (FO) of plant matter, invertebrates and soil in all the samples. The main invertebrate orders found in the samples were: Coleoptera, Orthoptera and Hymenoptera, with FO of 100%, 100% and 87,5%, respectively. Seeds were found in 100% of the samples. The FO of the Byrsonima orbignyana was high (62,5%), and evidences the potential of the yellow-armadillos as seed dispersers. The use of other techniques, such as the micro-histological...