estado de la cuestión

UIDB/04647/2020 UIDP/04647/2020publishersversionpublishe

Bionemo: molecular information on biodegradation metabolism

Bionemo (http://bionemo.bioinfo.cnio.es) stores manually curated information about proteins and genes directly implicated in the Biodegradation metabolism. When possible, the database includes information on sequence, domains and structures for proteins; and sequence, regulatory elements and transcription units for genes. Thus, Bionemo is a unique resource that complements other biodegradation databases such as the University of Minessota Biocatalysis/Biodegradation Database, or Metarouter, which focus more on the biochemical aspects of biodegradation than in the nature of the biomolecules carrying out the reactions. Bionemo has been built by manually associating sequences database entries to biodegradation reactions, using the information extracted from published articles. Information on transcription units and their regulation was also extracted from the literature for biodegradation genes, and linked to the underlying biochemical network. In its current version, Bionemo contains sequence information for 324 reactions and transcription regulation information for more than 100 promoters and 100 transcription factors. The information in the Bionemo database is available via a web server and the full database is also downloadable as a PostgresSQL dump. To facilitate the programmatic use of the information contained in the database, an object-oriented Perl API is also provided

Erosionabilidad del suelo a lo largo del gradiente climático Coll de Rates - Benidorm, Alicante

[Resumen] Se estudia la influencia del clima sobre la erosionabilidad de los suelos mediante la cuantificación de la estabilidad de los agregados por medio del test de Emerson, por impactos de gotas (CNO y TOI) y por ultrasonidos (UD) a lo largo del gradiente climático Coll de Rates-Benidorm. En todos los suelos estudiados la estabilidad de los agregados es muy elevada, lo que hace difícil encontrar diferencias apreciables entre zonas de estudio. Las distintas historias de uso del suelo (incendios, pastoreo, explotación de la biomasa, etc.) ha dado lugar a la inexistencia de la influencia del clima sobre la erosionabilidad de los suelos.[Abstract] The influence of climate on soil erodibility is studied by means of aggregate stability measurements with the Emerson, drop impacts· (CNO y TOI) and ultrasound (UD) tests along the Coll de Rates-Benidorm climatological gradient. The soils have a very high aggregate stability, and this is the reason why there are not clear differences between study zones. The different past land uses (forest fire, grazing, wood exploitation, etc./) have induced the non existence of the influence of climate on soil erodibility

Vegetable-based diets for chronic kidney disease? It Is time to reconsider

Traditional dietary recommendations to renal patients limited the intake of fruits and vegetables because of their high potassium content. However, this paradigm is rapidly changing due to the multiple benefits derived from a fundamentally vegetarian diet such as, improvement in gut dysbiosis, reducing the number of pathobionts and protein-fermenting species leading to a decreased production of the most harmful uremic toxins, while the high fiber content of these diets enhances intestinal motility and short-chain fatty acid production. Metabolic acidosis in chronic kidney disease (CKD) is aggravated by the high consumption of meat and refined cereals, increasing the dietary acid load, while the intake of fruit and vegetables is able to neutralize the acidosis and its deleterious consequences. Phosphorus absorption and bioavailability is also lower in a vegetarian diet, reducing hyperphosphatemia, a known cause of cardiovascular mortality in CKD. The richness of multiple plants in magnesium and vitamin K avoids their deficiency, which is common in these patients. These beneficial e ects, together with the reduction of inflammation and oxidative stress observed with these diets, may explain the reduction in renal patients’ complications and mortality, and may slow CKD progression. Finally, although hyperkalemia is the main concern of these diets, the use of adequate cooking techniques can minimize the amount absorbedThe Renal, Vascular and Diabetes Laboratory is funded by Ministerio de Economia, Industria y competitividad: FIS ISCIII FEDER funds PI16/01298 and Sociedad Madrileña de Nefrologia

Algunos ejemplos de relación entre agregación, capacidad de infiltración y erosión en suelos mediterráneos

[Resumen] Este trabajo tiene por objeto evaluar la influencia de la agregación sobre la capacidad de infiltración y la tendencia a la erosión de suelos mediterráneos sobre litología caliza. Se identifican algunas variables de agregación que influyen de una manera importante en la infiltración y la erosión, aunque es en combinación con otras características del suelo cuando estas variables explican mejor dichos parámetros. Se consiguen una serie de modelos de ecuaciones de regresión múltiple basadas en variables indicadoras de la agregación de los suelos y otras características (cobertura vegetal, materia orgánica, pedregosidad y humedad del suelo) que explican bastante bien la capacidad de infiltración, la concentración de sedimentos y la erosión de los suelos en las zonas de estudio.[Abstract] The objective of this work is to evaluate the influence of soil aggregation on soil infiltration capacity and erosion in mediterranean soils developed on limestones. Sorne key-variables related to soil aggregation which play an important role on soil infiltration capacity and erosion are identified. Especially the combination of these variables with other soil characterisitics give the most satisfactory results explaining soil infiltration and erosiono Sorne models of multiple regression equations based in variables related to aggregation and other soil characteristics (vegetation cover, organic matter, stoniness and soil moisture) are obtained. They explain quite well the infiltration capacity, the sediment concentration and the erosion in the study zones

Using Rules to Adapt Applications for Business Models with High Evolutionary Rates

Nowadays, business models are in permanent evolution since the requirements belongs to a rapidly evolving world. In a context where communications all around the world travel so fast the business models need to be adapted permanently to the information the managers receive. In such world, traditional software development, needed for adapting software to changes, do not work properly since business changes need to be in exploitation in shorter times. In that situation, it is needed to go quicker from the business idea to the exploitation environment. This issue can be solved accelerating the development speed: from the expert to the customer, with no –or few, technical intervention. This paper proposes an approach to empower domain experts in developing adaptability solutions by using automated sets of production rules in a friendly way. Furthermore, a use case that implements this kind of development was used in a real problem prototype

Simulation Approach for Timing Analysis of Genetic Logic Circuits

Constructing genetic logic circuits is an application of synthetic biology in which parts of the DNA of a living cell are engineered to perform a dedicated Boolean function triggered by an appropriate concentration of certain proteins or by different genetic components. These logic circuits work in a manner similar to electronic logic circuits, but they are much more stochastic and hence much harder to characterize. In this article, we introduce an approach to analyze the threshold value and timing of genetic logic circuits. We show how this approach can be used to analyze the timing behavior of single and cascaded genetic logic circuits. We further analyze the timing sensitivity of circuits by varying the degradation rates and concentrations. Our approach can be used not only to characterize the timing behavior but also to analyze the timing constraints of cascaded genetic logic circuits, a capability that we believe will be important for design automation in synthetic biology

Influencia de la estructura y usos del suelo en las características de retención hídrica de suelos mediterráneos sobre litología caliza

[Resumen] Se investigan las diferencias entre la capacidad de retención hídrica de suelos mediterráneos sobre litología caliza sometidos a diferentes usos: incendiados y bajo pastoreo intensivo. En estos mismos suelos se valoran las relaciones entre estructura del suelo y capacidad de retención hídrica a diversos puntos de la curva de retención. Agregados de pequeño tamaño y materia orgánica influyen positivamente y de manera considerable en la capacidad de retención en casi todos los puntos de la curva de retención determinados. Agregados de gran tamaño y microagregados estables en agua influyen negativamente. La combinación de agregados de tamaño 1-0,105 mm y el contenido en materia orgánica predicen bastante bien la capacidad de retención a niveles bajos de succión (pF 0,4 YpF 1).[Abstract] The differences between the water holding capacity of Mediterranean soils developed on limestones and under different land uses (burnt and overgrazed soils) are investigated. The relationships between soil structure and soil moisture characteristic at different levels of the water retention curve in these same soils are evaluated. Organic matter and small sized aggregates are positively related to the water holding capacity. Large sized aggregates and waterstable microaggregates are negatively related to the water holding capacity of the soils. The combination of aggregates at 1-0,105 mm and organic matter content predict quite well the water retention capacity at lower suction levels (pF 0,4 and pF 1)

Vegetable-Based Diets for Chronic Kidney Disease? It Is Time to Reconsider

Traditional dietary recommendations to renal patients limited the intake of fruits and vegetables because of their high potassium content. However, this paradigm is rapidly changing due to the multiple benefits derived from a fundamentally vegetarian diet such as, improvement in gut dysbiosis, reducing the number of pathobionts and protein-fermenting species leading to a decreased production of the most harmful uremic toxins, while the high fiber content of these diets enhances intestinal motility and short-chain fatty acid production. Metabolic acidosis in chronic kidney disease (CKD) is aggravated by the high consumption of meat and refined cereals, increasing the dietary acid load, while the intake of fruit and vegetables is able to neutralize the acidosis and its deleterious consequences. Phosphorus absorption and bioavailability is also lower in a vegetarian diet, reducing hyperphosphatemia, a known cause of cardiovascular mortality in CKD. The richness of multiple plants in magnesium and vitamin K avoids their deficiency, which is common in these patients. These beneficial effects, together with the reduction of inflammation and oxidative stress observed with these diets, may explain the reduction in renal patients' complications and mortality, and may slow CKD progression. Finally, although hyperkalemia is the main concern of these diets, the use of adequate cooking techniques can minimize the amount absorbed