Parmodel: a web server for automated comparative modeling of proteins

Parmodel is a web server for automated comparative modeling and evaluation of protein structures. The aim of this tool is to help inexperienced users to perform modeling, assessment, visualization, and optimization of protein models as well as crystallographers to evaluate structures solved experimentally. It is subdivided in four modules: Parmodel Modeling, Parmodel Assessment, Parmodel Visualization, and Parmodel Optimization. The main module is the Parmodel Modeling that allows the building of several models ford a same protein in a reduced time, through the distribution of modeling processes on a Beowulf cluster. Parmodel automates and integrates the main softwares used in comparative modeling as MODELLER, Whatcheck, Procheck, Raster3D, Molscript, and Gromacs. This web server is freely accessible at http://www.biocristalografia.df.ibilce.unesp.br/tools/parmodel. (C) 2004 Elsevier B.V. All rights reserved.

Electrochemical genosensors for the detection of Bonamia parasite. Selection of single strand-DNA (ssDNA) probes by simulation of the secondary structure folding

A post-PCR nucleic acid work by comparing experimental data, from electrochemical genosensors, and bioinformatics data, derived from the simulation of the secondary structure folding and prediction of hybridisation reaction, was carried out in order to rationalize the selection of ssDNA probes for the detection of two Bonamia species, B. exitiosa and B. ostreae, parasites of Ostrea edulis.Six ssDNA probes (from 11 to 25 bases in length, 2 thiolated and 4 biotinylated) were selected within different regions of B. ostreae and B. exitiosa PCR amplicons (300 and 304 bases, respectively) with the aim to discriminate between these parasite species. ssDNA amplicons and probes were analyzed separately using the "Mfold Web Server" simulating the secondary structure folding behaviour. The hybridisation of amplicon-probe was predicted by means of "Dinamelt Web Server". The results were evaluated considering the number of hydrogen bonds broken and formed in the simulated folding and hybridisation process, variance in gaps for each sequence and number of available bases. In the experimental part, thermally denatured PCR products were captured at the sensor interface via sandwich hybridisation with surface-tethered probes (thiolated probes) and biotinylated signalling probes. A convergence between analytical signals and simulated results was observed, indicating the possibility to use bioinformatic data for ssDNA probes selection to be incorporated in genosensors. (C) 2011 Elsevier B.V. All rights reserved.

Rendimento dos não-componentes da carcaça de cordeiros de diferentes genótipos

Non-carcass components percentages of lambs terminated in confinement, fed with diet containing 40:60 forage:concentrate ratio were influenced by lambs' breed (Morada Nova and 1/2 Somális Brasileira 1/2 Morada Nova), except for the liver, without difference between pure and crossbred animals, with average values of 2.29% and 0.35%, respectively. Crossbred lambs had higher percentages of skin (8.96%), head plus foot (10.68%), heart (0.88%), and kidney (0.93%) than purebred lambs (7.15%, 9.69%, 0.56% and 0.35%, respectively).

Interacción genotipo x ambiente sobre el peso al destete de bovinos nelore en Brasil

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Comparações entre equações de predição de consumo de capim-elefante cortado para vacas lactantes

This work aimed to compare intake prediction equations with values obtained by direct methods using chopped elephant-grass offered to crossbreed lactating cows with rumen canulas. The experimental design was a 3 x 3 Latin square (three animals and three cutting ages: 30, 45 and 60 days). The equations used for intake prediction (y) were: (1) y= -1.19 + 0.035(a+b) + 28.5c; (2) y= [%NDF on DM]*[NDF intake]/[(1- a - b)/KP+b/(c+kp)]/24; (3) y= -0.822 + 0.0748(a+b) + 40.7c and (4) equation 2 with values of intake measured directly. The predictions of NDF intake by equations were not different among treatments, instead of the difference among values measured directly: the 30 day-old had lower intake (5.29 kg/day) in relation to 45 (6.57 kg/day) and 60 (7.31 kg/day) day-old grasses. In general, equations overestimated the DM intake in relation to direct measuring (9.0 kg/cow/day), with exception of equation 3 which underestimated the intake (7.7 kg/day). The means of DM intake found by equations 1 and 2 (13.7 and 13.4 kg/cow/day, respectively) were similar between themselves and superior in relation to those found by equation 4 (9.7 kg/cow/day). The intakes measured directly were similar to those found in equation 4 and higher than those found by equation 3. The mean of rumen fill of 7.5 kg was superior to those of 5.2 kg estimated by equation. The prediction equations based on in situ degradability parameters do not supply estimates of DM intake, NDF intake and rumen fill in agreement with values obtained by direct methods.

Composição e digestibilidade in vitro de genótipos de capim-elefante, aos 56 dias de rebrota

Twelve elephant grass genotypes were evaluated in a randomized blocks design with three repetitions. The experimental parcel was of 4 lines with 3m of length, spaced of 1 m and fertilized with 100 kg of P2O5, 100 kg of N, 60 kg of K2O and 25 kg of micronutrients/ha. Significant differences were observed among the genotypes for neutral detergent fiber (FND), acid detergent fiber (FAD) and lignin. The genotypes CNPGL 92-70-02, CNPGL 91-25-01 and CNPGL 93-32-02 showed low values for FND, FAD and lignin, simultaneously, outstanding between the others. There were no significant differences in the levels of dry matter and crude protein contents and in in vitro dry matter digestibility between the genotypes.

Leitões lactentes e desmamados alimentados com dietas farelada ou extrusada seca e umida

This work was conducted throughout three phases of swine's growth (7 days from birth till the weaning age; from weaning until 7 days later and from 8 to 21 days after weaning); taking as objective the evaluation of the development of suckling and weaned piglets fed with a bran or extruded, dried and wet diet. We've used, for this paper, a total number of 31 pigs breeds, weaned and in average 21 day's lifetime and 3 different rations: dried bran; dried extruded bran and wet extruded bran (2 volumes of water to one volume of ration). During the 8th and 21st day after weaning all the animals received the same bran dried ration. Water and ration were supplied ad libitum. The experimental delimitation was totally random, with 3 treatments and eleven repetitions in the two first phases and five repetitions in the third phase, the multivariate variance analysis applied in the inferences about the results and from this we could conclude that the weight daily gain and the ration daily consumption were significantly not affected, i.e. by the processing, by the dry material ration content. However, we could observe a tendency to increase ration consumption and weight gaining when the animals were fed with bran extruded wet ration.

Modelos no lineales para describir el crecimiento de bufalinos de la raza Murrah

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Uso de probióticos em ração de rã-touro (Rana catesbeiana): Desempenho produtivo

This experiment had as objective to evaluate the effect of two probiotics, added in the commercial ration (40% PB) on the productive performance of bullfrog Rana catesbeiana. The test was lead with two dosages of each probiotic (5 g/kg of food and 10 g/kg of food), plus a control group, with three repetitions, totalizing five treatments. The weight gain, the feed conversion (CA) and the specific growth rate (TCE) have been analyzed. The results show that the probiotics affect the weight gain of Rana catesbeiana until reaching 200 g, thus decreasing the time of productivity in 28 days but not improving the CA and the TCE. With bases in these experimental conditions probiotic 1 (Lactobacillus acidofillus, Bifidobacterium bifidum and Enterococcus faecium -3×10 6 UFC/g) at lower dose (5 g/kg of ration) provided the best performance of the animals.

Development of a natural products database from the biodiversity of Brazil

We describe herein the design and development of an innovative tool called the NuBBE database (NuBBEDB), a new Web-based database, which incorporates several classes of secondary metabolites and derivatives from the biodiversity of Brazil. This natural product database incorporates botanical, chemical, pharmacological, and toxicological compound information. The NuBBEDB provides specialized information to the worldwide scientific community and can serve as a useful tool for studies on the multidisciplinary interfaces related to chemistry and biology, including virtual screening, dereplication, metabolomics, and medicinal chemistry. The NuBBEDB site is at http://nubbe.iq.unesp.br/nubbeDB.html. © 2013 The American Chemical Society and American Society of Pharmacognosy.

MATIW 1451 - monitoramento e acionamento de transdutores inteligentes através da Web (Padrão IEEE 1451)

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Correlações entre deslocamento e conformação em eqüinos Mangalarga

The aim of this study was estimate genetic, environmental and phenotypic correlations between movement and conformation traits in Mangalarga horses, in Brazil. The data were provided by Brazilian Association of Mangalarga Horses Breeders, comprised 9865 observations for movement and conformation traits. The data were organized by SAS, and the (co)variance components were estimated by the program MTGSAM. The heritabilities estimates varied from 0.22 (shoulder) to 0.29 (limbs), and the genetic correlations ranged from 0.51 (movement and neck) to 0.31 (movement and limbs).

Selenium supplementation enhances weight gain in cattle

To evaluate the effect of selenium on cattle growth in a continuous grazed pasture system. Selenium was added to protein-mineral salt and given to male, around-12-month old, non-castrated Nellore calves. Animals were randomly and equally distributed into 4 groups (15 calves/group) which received supplementation containing 0, 3.6, 5.4 or 6.4 mg selenium/animal/day (groups Gc, G 3.6, G 5.4 and G 6.4, respectively). The animals were weighed on day zero and 120, and the pasture forages were collected at day 0 for chemical analyses. Weight gain was higher in cattle from G 5,4 (45.58%) than in the other groups, and higher in G 3,6 (24.97%) and G 6,4 (22.67%) than in Gc. The supplementation with 5.4 mg selenium/animal/day enhanced weight gain in cattle fed on selenium poor diet (0.04 mg Se/kg dry matter).

Remote laboratory experiment access via an RFID interface

In this paper, remote laboratory experiment access is considered through the use of radio frequency identification (RFID) technology. Contactless smart cards are used widely in many applications from travel cards through to building access control and inventory tracking. However, their use is considered here for access to electronic engineering experimentation in a remote laboratory setting by providing the ability to interface experiments through this contactless (wireless) connection means. A case study design is implemented to demonstrate such a means by incorporating experiment data onto a contactless smart card and accessing this via a card reader and web server arrangement. © 2012 IEEE.

Uma proposta de desenvolvimento de laboratório remoto de automação e acionamento de máquinas elétricas para uso didático, utilizando software open source

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)