Genomic Study of RNA Polymerase II and III SNAP(c)-Bound Promoters Reveals a Gene Transcribed by Both Enzymes and a Broad Use of Common Activators.

SNAP(c) is one of a few basal transcription factors used by both RNA polymerase (pol) II and pol III. To define the set of active SNAP(c)-dependent promoters in human cells, we have localized genome-wide four SNAP(c) subunits, GTF2B (TFIIB), BRF2, pol II, and pol III. Among some seventy loci occupied by SNAP(c) and other factors, including pol II snRNA genes, pol III genes with type 3 promoters, and a few un-annotated loci, most are primarily occupied by either pol II and GTF2B, or pol III and BRF2. A notable exception is the RPPH1 gene, which is occupied by significant amounts of both polymerases. We show that the large majority of SNAP(c)-dependent promoters recruit POU2F1 and/or ZNF143 on their enhancer region, and a subset also recruits GABP, a factor newly implicated in SNAP(c)-dependent transcription. These activators associate with pol II and III promoters in G1 slightly before the polymerase, and ZNF143 is required for efficient transcription initiation complex assembly. The results characterize a set of genes with unique properties and establish that polymerase specificity is not absolute in vivo.

INTELIGÊNCIA ARTIFICIAL: SISTEMAS ESPECIALISTAS NO GERENCIAMENTO DA INFORMAÇÃO

O principal objetivo deste artigo é propor um modelo para sistemas de gerenciamento da informação baseado em técnicas de inteligência artificial. O modelo propõe uma arquitetura de sistema especialista para gerenciamento da informação, sugerindo a utilização de um analisador semântico embutido na interface do usuário final. A abordagem enfatiza a dificuldade em se obter informações com precisão e qualidade, para apoiar tomadores de decisões, e a necessidade de prover os usuários finais com mecanismos, poderosos, capazes de analisar, selecionar e direcionar-lhes informações, de acordo com as necessidades e urgências de cada um

Artificial muscle for end-stage heart failure.

We describe a device made of artificial muscle for the treatment of end-stage heart failure as an alternative to current heart assist devices. The key component is a matrix of nitinol wires and aramidic fibers called Biometal muscle (BM). When heated electrically, it produces a motorless, smooth, and lifelike motion. The BM is connected to a carbon fiber scaffold, tightening the heart and providing simultaneous assistance to the left and right ventricles. A pacemaker-like microprocessor drives the contraction of the BM. We tested the device in a dedicated bench model of diseased heart. It generated a systolic pressure of 75 mm Hg and ejected a maximum of 330 ml/min, with an ejection fraction of 12%. The device required a power supply of 6 V, 250 mA. This could be the beginning of an era in which BMs integrate or replace the mechanical function of natural muscles.

Enhanced polyhydroxyalkanoates accumulation by Halomonas spp. in artificial biofilms of alginate beads.

Microbial mats are complex but stable, multi-layered and multi-functional biofilms, which are the most frequent bacterial formations in nature. The functional strategies and physiological versatility of the bacterial populations growing in microbial mats allow bacteria to resist changing conditions within their environment. One of these strategies is the accumulation of carbon- and energy-rich polymers that permit the recovery of metabolic activities when favorable conditions are restored. In the present study, we systematically screened microbial mats for bacteria able to accumulate large amounts of the ester carbon polymers polyhydroxyalkanoates (PHA). Several of these strains were isolated from Ebro Delta microbial mats and their ability to accumulate PHA up to 40-60 % of their dry weight was confirmed. According to two identification approaches (16S rRNA and ropD genes), these strains were identified as Halomonas alkaliphila (MAT-7, -13, -16), H. neptunia (MAT-17), and H. venusta (MAT-28). To determine the mode of growth yielding maximum PHA accumulation, these three different species were cultured in an artificial biofilm in which the cells were immobilized on alginate beads. PHA accumulation by cells that had detached from the biofilm was compared with that of their planktonic counterparts. Experiments in different culture media showed that PHA accumulation, measured as the relative fluorescence intensity after 48 h of incubation at 30 °C, was higher in immobilized than in planktonic cells, with the exception of cells growing in 5 % NaCl, in which PHA accumulation was drastically lower in both. Therefore, for obtaining high PHA concentrations, the use of immobilized cells may be a good alternative to the PHA accumulation by bacteria growing in the classical, planktonic mode. From the ecological point of view, increased PHA accumulation in detached cells from biofilms would be a natural strategy to improve bacterial dispersion capacity and, consequently, to increase survival in stressed environments.

Mecánica de la succión: comparación entre la lactancia artificial y la lactancia materna

Introducción: Hay poco conocimiento sobre la similitud de la mecánica entre la lactancia materna y la artificial. Evaluamos la mecánica de la succión en neonatos con lactancia materna exclusiva, lactancia artificial exclusiva y lactancia mixta. Nuestra hipótesis fue que el patrón fisiológico de los movimientos de succión varía según el tipo de alimentación. Según esta hipótesis, los niños con lactancia materna exclusiva realizan unos movimientos al mamar distintos a los de la succión de una tetina, realizados por niños con lactancia artificial. Los niños con lactancia mixta mezclan ambos tipos de movimientos de succión. Métodos: Estudio transversal de neonatos de 21-28 días de edad con lactancia materna o artificial exclusiva (124 parejas madre-hijo), y ensayo de campo, abierto, cruzado y aleatorizado, realizado en neonatos de 21-28 días (110 parejas madre-hijo) y en lactantes de 3-5 meses de edad (125 parejas madre-hijo) con lactancia mixta. Las variables principales fueron los movimientos de succión y las pausas. Resultados: Los neonatos de 21-28 días de edad alimentados con lactancia artificial exclusiva mostraron un menor número de movimientos de succión y el mismo número de pausas, pero de mayor duración, que los neonatos con lactancia materna exclusiva. Entre los niños que recibieron lactancia mixta, el número de movimientos de succión al recibir alimentación con biberón fue similar y las pausas menos numerosas y de menor duración respecto a lo observado al amamantar, tanto a los 21-28 días como a los 3-5 meses de edad. En este grupo de lactancia mixta, la cifra media de tomas de lactancia materna fue de 5,83 ± 1,93 a los 21-28 días de vida y de 4,42 ± 1,67 a los 3-5 meses de edad. En el análisis de equivalencia, realizado sobre los niños que recibieron lactancia mixta, el intervalo de confianza del 95% de la razón de movimientos con lactancia artificial y con lactancia materna se situó fuera del rango de equivalencia, indicó un número de movimientos de succión menor en un 5,9-8,7% al tomar el biberón, así como un menor número de pausas y una duración más breve de ellas en este mismo grupo. Conclusiones: En la lactancia mixta, la comparación entre las tomas de biberón y las de pecho se situó fuera del rango de equivalencia, aunque las diferencias fueron pequeñas. Los niños con lactancia mixta mezclan ambos tipos de movimientos (lactancia materna y lactancia artificial) durante la fase de aprendizaje y adoptan su propio patrón.

Analysis of the contribution of the β-oxidation auxiliary enzymes in the degradation of the dietary conjugated linoleic acid 9-cis-11-trans-octadecadienoic acid in the peroxisomes of Saccharomyces cerevisiae

Beta-oxidation of the conjugated linoleic acid 9-cis,11-trans-octadecadienoic acid (rumenic acid) was analyzed in vivo in Saccharomyces cerevisiae by monitoring polyhydroxyalkanoate production in the peroxisome. Polyhydroxyalkanoate is synthesized by the polymerization of the beta-oxidation intermediates 3-hydroxyacyl-CoAs via a bacterial polyhydroxyalkanoate synthase targeted to the peroxisome. The amount of polyhydroxyalkanaote synthesized from the degradation of rumenic acid was found to be similar to the amount synthesized from the degradation of 10-trans,12-cis-octadecadienoic acid, oleic acid or 10-cis-heptadecenoic acid. Furthermore, the degradation of 10-cis-heptadecenoic acid was found to be unaffected by the presence of rumenic acid in the media. Efficient degradation of rumenic acid was found to be independent of the Delta(3,5),Delta(2,4)-dienoyl-CoA isomerase but instead relied on the presence of Delta(3),Delta(2)-enoyl-CoA isomerase activity. The presence of the unsaturated monomer 3-hydroxydodecenoic acid in polyhydroxyalkanoate derived from rumenic acid degradation was found to be dependent on the presence of a Delta(3),Delta(2)-enoyl-CoA isomerase activity. Together, these data indicate that rumenic acid is mainly degraded in vivo in S. cerevisiae through a pathway requiring only the participation of the auxiliary enzymes Delta(3),Delta(2)-enoyl-CoA isomerase, along with the enzyme of the core beta-oxidation cycle.

Molecular chaperones as enzymes that catalytically unfold misfolded polypeptides.

Stress-denatured or de novo synthesized and translocated unfolded polypeptides can spontaneously reach their native state without assistance of other proteins. Yet, the pathway to native folding is complex, stress-sensitive and prone to errors. Toxic misfolded and aggregated conformers may accumulate in cells and lead to degenerative diseases. Members of the canonical conserved families of molecular chaperones, Hsp100s, Hsp70/110/40s, Hsp60/CCTs, the small Hsps and probably also Hsp90s, can recognize and bind with high affinity, abnormally exposed hydrophobic surfaces on misfolded and aggregated polypeptides. Binding to Hsp100, Hsp70, Hsp110, Hsp40, Hsp60, CCTs and Trigger factor may cause partial unfolding of the misfolded polypeptide substrates, and ATP hydrolysis can induce further unfolding and release from the chaperone, leading to spontaneous refolding into native proteins with low-affinity for the chaperones. Hence, specific chaperones act as catalytic polypeptide unfolding isomerases, rerouting cytotoxic misfolded and aggregated polypeptides back onto their physiological native refolding pathway, thus averting the onset of protein conformational diseases.

Comportamento de fungos e de sementes de feijoeiro durante o teste de envelhecimento artificial

O teste de envelhecimento artificial, recomendado para avaliar o vigor de lotes de sementes, apresenta variabilidade em seus resultados; a ação dos fungos é considerada uma das causas dessa variabilidade. Este trabalho objetivou verificar os efeitos de diferentes períodos de envelhecimento artificial, no comportamento fisiológico de sementes do feijoeiro e dos fungos Aspergillus spp., Penicillium spp., Fusarium oxysporum e Colletotrichum lindemuthianum, inoculados artificialmente. Foram conduzidos testes de sanidade, germinação, tetrazólio, emergência, condutividade elétrica e lixiviação de potássio. As respostas obtidas, dependentes da duração do período de envelhecimento, indicaram efeitos da espécie fúngica presente. Concluiu-se que o teste de envelhecimento artificial associa a expressão de causas fisiológicas e sanitárias, o que prejudica a interpretação dos dados obtidos; a presença de fungos, principalmente de Aspergillus spp., pode ser considerada como capaz de interferir de modo negativo no desempenho das sementes envelhecidas artificialmente.

Genome-wide association study identifies loci influencing concentrations of liver enzymes in plasma.

Concentrations of liver enzymes in plasma are widely used as indicators of liver disease. We carried out a genome-wide association study in 61,089 individuals, identifying 42 loci associated with concentrations of liver enzymes in plasma, of which 32 are new associations (P = 10(-8) to P = 10(-190)). We used functional genomic approaches including metabonomic profiling and gene expression analyses to identify probable candidate genes at these regions. We identified 69 candidate genes, including genes involved in biliary transport (ATP8B1 and ABCB11), glucose, carbohydrate and lipid metabolism (FADS1, FADS2, GCKR, JMJD1C, HNF1A, MLXIPL, PNPLA3, PPP1R3B, SLC2A2 and TRIB1), glycoprotein biosynthesis and cell surface glycobiology (ABO, ASGR1, FUT2, GPLD1 and ST3GAL4), inflammation and immunity (CD276, CDH6, GCKR, HNF1A, HPR, ITGA1, RORA and STAT4) and glutathione metabolism (GSTT1, GSTT2 and GGT), as well as several genes of uncertain or unknown function (including ABHD12, EFHD1, EFNA1, EPHA2, MICAL3 and ZNF827). Our results provide new insight into genetic mechanisms and pathways influencing markers of liver function.

Mecánica de la succión: comparación entre la lactancia artificial y la lactancia materna

Introducción: Hay poco conocimiento sobre la similitud de la mecánica entre la lactancia materna y la artificial. Evaluamos la mecánica de la succión en neonatos con lactancia materna exclusiva, lactancia artificial exclusiva y lactancia mixta. Nuestra hipótesis fue que el patrón fisiológico de los movimientos de succión varía según el tipo de alimentación. Según esta hipótesis, los niños con lactancia materna exclusiva realizan unos movimientos al mamar distintos a los de la succión de una tetina, realizados por niños con lactancia artificial. Los niños con lactancia mixta mezclan ambos tipos de movimientos de succión. Métodos: Estudio transversal de neonatos de 21-28 días de edad con lactancia materna o artificial exclusiva (124 parejas madre-hijo), y ensayo de campo, abierto, cruzado y aleatorizado, realizado en neonatos de 21-28 días (110 parejas madre-hijo) y en lactantes de 3-5 meses de edad (125 parejas madre-hijo) con lactancia mixta. Las variables principales fueron los movimientos de succión y las pausas. Resultados: Los neonatos de 21-28 días de edad alimentados con lactancia artificial exclusiva mostraron un menor número de movimientos de succión y el mismo número de pausas, pero de mayor duración, que los neonatos con lactancia materna exclusiva. Entre los niños que recibieron lactancia mixta, el número de movimientos de succión al recibir alimentación con biberón fue similar y las pausas menos numerosas y de menor duración respecto a lo observado al amamantar, tanto a los 21-28 días como a los 3-5 meses de edad. En este grupo de lactancia mixta, la cifra media de tomas de lactancia materna fue de 5,83 ± 1,93 a los 21-28 días de vida y de 4,42 ± 1,67 a los 3-5 meses de edad. En el análisis de equivalencia, realizado sobre los niños que recibieron lactancia mixta, el intervalo de confianza del 95% de la razón de movimientos con lactancia artificial y con lactancia materna se situó fuera del rango de equivalencia, indicó un número de movimientos de succión menor en un 5,9-8,7% al tomar el biberón, así como un menor número de pausas y una duración más breve de ellas en este mismo grupo. Conclusiones: En la lactancia mixta, la comparación entre las tomas de biberón y las de pecho se situó fuera del rango de equivalencia, aunque las diferencias fueron pequeñas. Los niños con lactancia mixta mezclan ambos tipos de movimientos (lactancia materna y lactancia artificial) durante la fase de aprendizaje y adoptan su propio patrón.

Rearing the southern green stink bug using an artificial dry diet and an artificial plant

Laboratory and greenhouse studies were conducted with an artificial dry diet to rear nymphs, and with an artificial plant as substrate for egg laying by the southern green stink bug, Nezara viridula (L.). The artificial diet was composed of: soybean protein (15 g); potato starch (7.5 g); dextrose (7.5 g); sucrose (2.5 g); cellulose (12.5 g); vitamin mixture (niacinamide 1 g, calcium pantothenate 1 g, thiamine 0.25 g, riboflavin 0.5 g, pyridoxine 0.25 g, folic acid 0.25 g, biotin 0.02 mL, vitamin B12 1 g - added to 1,000 mL of distilled water) (5.0 mL); soybean oil (20 mL); wheat germ (17.9 g); and water (30 mL). Nymphs showed normal feeding behavior when fed on the artificial diet. Nymphal development time was longer than or similar to that of nymphs fed on soybean pods. Total nymphal mortality was low (ca. 30%), both for nymphs reared on the artificial diet, and for nymphs fed on soybean pods. At adult emergence, fresh body weights were significantly (P<0.01) less on the artificial diet than on soybean pods. Despite the lower adult survivorship and fecundity on artificial plants than on soybean plants, it was demonstrated for the first time that a model simulating a natural plant, can be used as a substrate for egg mass laying, in conjunction with the artificial diet.

Sucrose metabolizing enzymes in cell suspension cultures of Bauhinia forficata, Curcuma zedoaria and Phaseolus vulgaris

The objective of this work was to study the activity of sucrose metabolizing enzymes in extracts of cell suspension cultures of Bauhinia forficata Link, Curcuma zedoaria Roscoe and Phaseolus vulgaris L. Invertase pathway was identified in the three studied species. Sucrose synthase pathway was also responsible for sucrose metabolism in Curcuma zedoaria and Phaseolus vulgaris cells. Activity values higher than 300 nmol min-1 mg-1 of protein were found for acid and neutral invertases, UDPglucose pyrophosphorylase and phosphoglucomutase in the cell extract of the three plant species. Sucrose synthase showed low activity in Bauhinia forficata cells. As sucrose concentration in the culture medium decreased, sucrose synthase activity increased in C. zedoaria and P. vulgaris cells. The glycolytic enzymes activity gradually reduced at the end of the culture period, when carbohydrate was limited.