Optical Multistability and Oscillations in Hybrid Optical Bistable Systems with Short Delay Times

Optical instabilities in the output light from a bistable optical device (BOD) with a delayed feedback was predicted by Ikeda [1]. Gibbs et al. [2] gave the first experimental verification of this type of instabilities. From that time several groups have studied the instabilities of the BOD for different relations between the delay time tR and the time constant ح of the system. In a previous paper [3] an empirical and analytical study of instabilities in hybrid BOD was reported by us. The employed set up is shown in Fig. 1.

Empirical and analytical study of instabilities in hybrid optical bistable systems

As it is well known from the work by Gibbs et al., optical turbulence and periodic oscillations are easily seen in hybrid optical bistable devices when a delay is added to the feedback. Such effects, as it was pointed out by Gibbs, may be used to convert cw laser power into a train of light pulses.

Self-beating instabilities in bistable devices

Since the observation of optical bistability by Gibbs et al., optical bistability has been the field where researchers from many fields have found a common place to work. More recently, when Ikeda and co-workers discussed the effect of a delayed feedback on instability of a ring cavity containing a non linear dielectric medium, and pointed out that the transmitted light from the ring cavity can be periodic or chaotic in time under a certain condition, optical bistable devices have shown new possibilities to be applied in many different fields. The novel phenomenon has been predicted to be observed in the hybrid optical device and has been confirmed by Gibbs et al. Moreover, as we have shown, a similar effect can be obtained when liquid crystal cells are employed as non linear element.

Image analysis by moment invariants using a set of step-like basis functions

Moment invariants have been thoroughly studied and repeatedly proposed as one of the most powerful tools for 2D shape identification. In this paper a set of such descriptors is proposed, being the basis functions discontinuous in a finite number of points. The goal of using discontinuous functions is to avoid the Gibbs phenomenon, and therefore to yield a better approximation capability for discontinuous signals, as images. Moreover, the proposed set of moments allows the definition of rotation invariants, being this the other main design concern. Translation and scale invariance are achieved by means of standard image normalization. Tests are conducted to evaluate the behavior of these descriptors in noisy environments, where images are corrupted with Gaussian noise up to different SNR values. Results are compared to those obtained using Zernike moments, showing that the proposed descriptor has the same performance in image retrieval tasks in noisy environments, but demanding much less computational power for every stage in the query chain.

Bilingual Polytechnic Dictionary of Metaphors: Spanish to English

This paper provides an overview of an ongoing research project work: “A Polytechnical Bilingual Dictionary of Metaphors: Spanish-English/English-Spanish” done by the UPM consolidated research group “DISCYT” (Estudios Cognitivos del Discurso Científico-Técnico). A detailed explanation of the method adopted to identify key metaphors collected from the different subject areas is included. Drawing from recognized empirical methods (Pragglejaz 2007, Cameron 2007, Steen 2007), the examples have been examined according to the main tenets of conceptual metaphor and conceptual integration theory (Deignan 2005, Gibbs 2008, Lakoff 1993, Lakoff & Johnson 1999, Steen 2007, Fauconnier & Turner 2008). This forthcoming dictionary comprises metaphors of over 10 scientific and technical areas such as Aeronautical engineering, Agronomy, Architecture, Biotechnology, Civil engineering, Geology and Mining, Mechanical engineering, Nanotechnology, Naval and Maritime engineering, Sports and Telecommunications. In this paper, we focus on the study of examples taken from civil engineering, materials engineering and naval engineering. Representative cases are analyzed from several points of view (multimodal metaphor, linguistic information strategies and translation into target language) highlighting cross linguistic variations between Spanish and English.

Large-scale identification of gibberellin-related transcription factor defines group VII ERFs as functional of DELLA partners

DELLA proteins are the master negative regulators in gibberellin (GA) signaling acting in the nucleus as transcriptional regulators. The current view of DELLA action indicates that their activity relies on the physical interaction with transcription factors (TFs). Therefore, the identification of TFs through which DELLAs regulate GA responses is key to understanding these responses from a mechanistic point of view. Here, we have determined the TF interactome of the Arabidopsis (Arabidopsis thaliana) DELLA protein GIBBERELLIN INSENSITIVE and screened a collection of conditional TF overexpressors in search of those that alter GA sensitivity. As a result, we have found RELATED TO APETALA2.3, an ethylene-induced TF belonging to the group VII ETHYLENE RESPONSE FACTOR of the APETALA2/ethylene responsive element binding protein superfamily, as a DELLA interactor with physiological relevance in the context of apical hook development. The combination of transactivation assays and chromatin immunoprecipitation indicates that the interaction with GIBBERELLIN INSENSITIVE impairs the activity of RELATED TO APETALA2.3 on the target promoters. This mechanism represents a unique node in the cross regulation between the GA and ethylene signaling pathways controlling differential growth during apical hook development.

Independent doubly Adaptive Rejection Metropolis Sampling

Adaptive Rejection Metropolis Sampling (ARMS) is a wellknown MCMC scheme for generating samples from onedimensional target distributions. ARMS is widely used within Gibbs sampling, where automatic and fast samplers are often needed to draw from univariate full-conditional densities. In this work, we propose an alternative adaptive algorithm (IA2RMS) that overcomes the main drawback of ARMS (an uncomplete adaptation of the proposal in some cases), speeding up the convergence of the chain to the target. Numerical results show that IA2RMS outperforms the standard ARMS, providing a correlation among samples close to zero.

Modelización de la gasificación de lodos de depuradoras urbanas

La gasificación de lodos de depuración consiste en la conversión termoquímica del lodo por oxidación parcial a alta temperatura mediante un agente gasificante, que generalmente es aire, oxígeno o vapor de agua. Se trata de una tecnología de gran interés, ya que consigue reducir la masa de estos residuos y permite el aprovechamiento de los gases formados, tanto en la generación de energía térmica y/o eléctrica como en la síntesis de productos químicos orgánicos y combustibles líquidos. Debido a la complejidad de este proceso, es útil el uso de modelos que faciliten su estudio de forma fiable y a bajo coste. El presente Proyecto Fin de Carrera se centra en el diseño de un modelo adimensional de equilibrio en estado estacionario basado en la minimización de la energía libre de Gibbs. Para ello, se ha empleado el software de simulación de procesos Aspen Plus, que posee una amplia base de datos de propiedades físicas y permite gran flexibilidad en el manejo de sólidos. Para la elaboración del modelo se han asumido las hipótesis de mezcla perfecta dentro del reactor y operación isoterma. El gasificador se ha considerado de lecho fluidizado burbujeante, al permitir un buen control de la temperatura y una alta transferencia de materia y energía entre el sólido y el agente gasificante. El modelo desarrollado consta de cuatro etapas. La primera reproduce el proceso de pirólisis o descomposición térmica de los componentes del lodo en ausencia de agente gasificante. En la segunda etapa se simula que todo el nitrógeno y el azufre contenidos en el lodo se transforman en amoniaco y ácido sulfhídrico, respectivamente. En la tercera etapa se produce la gasificación en dos reactores. El primer gasificador alcanza el equilibrio químico mediante la minimización de la energía libre de Gibbs del sistema. En el segundo reactor se establece un equilibrio restringido por medio de la especificación de una aproximación de temperatura para cada reacción. Este método permite validar los resultados del modelo con datos reales. En la última etapa se separa el residuo carbonoso o char (compuesto por carbono y cenizas) del gas de salida, formado por N2, H2, CO, CO2, CH4 (supuesto como único hidrocarburo presente), NH3, H2S y H2O. Este gas debe ser depurado mediante equipos de limpieza aguas abajo. Los resultados de la simulación del modelo han sido validados frente a los valores obtenidos en ensayos previos llevados a cabo en la planta de gasificación a escala de laboratorio ubicada en el Departamento de Ingeniería Química Industrial y del Medio Ambiente de la Escuela Técnica Superior de Ingenieros Industriales de la Universidad Politécnica de Madrid. Estos resultados han mostrado muy buena concordancia con los obtenidos experimentalmente, con un error inferior al 7% en todos los parámetros analizados en el caso de gasificación con aire y menor al 13% cuando se utiliza una mezcla aire/vapor de agua como agente gasificante. Se ha realizado un análisis de sensibilidad con el fin de estudiar la influencia de las condiciones de operación (temperatura, ratio equivalente y ratio vapor/biomasa) sobre los resultados del proceso modelado (composición, producción y poder calorífico inferior de los gases, conversión de carbono y eficiencia de la gasificación). Para ello, se han llevado a cabo diferentes simulaciones modificando la temperatura de gasificación entre 750ºC y 850ºC, el ratio equivalente (ER) entre 0,2 y 0,4 y el ratio vapor/biomasa (S/B) entre 0 y 1. Como ya ocurriera con la validación del modelo, los resultados de las simulaciones bajo las distintas condiciones de gasificación se ajustan de forma satisfactoria a los valores experimentales. Se ha encontrado que un aumento en la temperatura mejora la cantidad y la calidad del gas producido y, por tanto, la eficiencia del proceso. Un incremento del ratio equivalente reduce la concentración de CO y H2 en el gas y, en consecuencia, también su poder calorífico. Sin embargo, valores bajos del ratio equivalente disminuyen la producción de gases y la conversión de carbono. La alimentación de vapor de agua en el sistema mejora todos los parámetros analizados. Por tanto, dentro del rango estudiado, las condiciones de operación que optimizan el proceso de gasificación de lodos consisten en el empleo de mezclas aire/vapor de agua como agente gasificante, una temperatura de 850ºC y un ER de 0,3.

A human homolog of the Saccharomyces cerevisiae REV3 gene, which encodes the catalytic subunit of DNA polymerase ζ

To get a better understanding of mutagenic mechanisms in humans, we have cloned and sequenced the human homolog of the Saccharomyces cerevisiae REV3 gene. The yeast gene encodes the catalytic subunit of DNA polymerase ζ, a nonessential enzyme that is thought to carry out translesion replication and is responsible for virtually all DNA damage-induced mutagenesis and the majority of spontaneous mutagenesis. The human gene encodes an expected protein of 3,130 residues, about twice the size of the yeast protein (1,504 aa). The two proteins are 29% identical in an amino-terminal region of ≈340 residues, 39% identical in a carboxyl-terminal region of ≈850 residues, and 29% identical in a 55-residue region in the middle of the two genes. The sequence of the expected protein strongly predicts that it is the catalytic subunit of a DNA polymerase of the pol ζ type; the carboxyl-terminal domain possesses, in the right order, the six motifs characteristic of eukaryotic DNA polymerases, most closely resembles yeast pol ζ among all polymerases in the GenBank database, and is different from the human α, δ, and ɛ enzymes. Human cells expressing high levels of an hsREV3 antisense RNA fragment grow normally, but show little or no UV-induced mutagenesis and are slightly more sensitive to killing by UV. The human gene therefore appears to carry out a function similar to that of its yeast counterpart.

DNA polymerase δ isolated from Schizosaccharomyces pombe contains five subunits

DNA polymerase δ (pol δ) plays an essential role in DNA replication, repair, and recombination. We have purified pol δ from Schizosaccharomyces pombe more than 103-fold and demonstrated that the polymerase activity of purified S. pombe pol δ is completely dependent on proliferating cell nuclear antigen and replication factor C. SDS/PAGE analysis of the purified fraction indicated that the pol δ complex consists of five subunits that migrate with apparent molecular masses of 125, 55, 54, 42, and 22 kDa. Western blot analysis indicated that the 125, 55, and 54 kDa proteins are the large catalytic subunit (Pol3), Cdc1, and Cdc27, respectively. The identity of the other two subunits, p42 and p22, was determined following proteolytic digestion and sequence analysis of the resulting peptides. The peptide sequences derived from the p22 subunit indicated that this subunit is identical to Cdm1, previously identified as a multicopy suppressor of the temperature-sensitive cdc1-P13 mutant, whereas peptide sequences derived from the p42 subunit were identical to a previously uncharacterized ORF located on S. pombe chromosome 1.

Origin and evolutionary relationships of giant Galápagos tortoises

Perhaps the most enduring debate in reptile systematics has involved the giant Galápagos tortoises (Geochelone nigra), whose origins and systematic relationships captivated Charles Darwin and remain unresolved to this day. Here we report a phylogenetic reconstruction based on mitochondrial DNA sequences from Galápagos tortoises and Geochelone from mainland South America and Africa. The closest living relative to the Galápagos tortoise is not among the larger-bodied tortoises of South America but is the relatively small-bodied Geochelone chilensis, or Chaco tortoise. The split between G. chilensis and the Galápagos lineage probably occurred 6 to 12 million years ago, before the origin of the oldest extant Galápagos island. Our data suggest that the four named southern subspecies on the largest island, Isabela, are not distinct genetic units, whereas a genetically distinct northernmost Isabela subspecies is probably the result of a separate colonization. Most unexpectedly, the lone survivor of the abingdoni subspecies from Pinta Island (“Lonesome George”) is very closely related to tortoises from San Cristóbal and Española, the islands farthest from the island of Pinta. To rule out a possible recent transplant of Lonesome George, we sequenced DNA from three tortoises collected on Pinta in 1906. They have sequences identical to Lonesome George, consistent with his being the last survivor of his subspecies. This finding may provide guidance in finding a mate for Lonesome George, who so far has failed to reproduce.

Reconstitution of human replication factor C from its five subunits in baculovirus-infected insect cells

Human replication factor C (RFC, also called activator 1) is a five-subunit protein complex (p140, p40, p38, p37, and p36) required for proliferating cell nuclear antigen (PCNA)-dependent processive DNA synthesis catalyzed by DNA polymerase δ or ɛ. Here we report the reconstitution of the RFC complex from its five subunits simultaneously overexpressed in baculovirus-infected insect cells. The purified baculovirus-produced RFC appears to contain equimolar levels of each subunit and was shown to be functionally identical to its native counterpart in (i) supporting DNA polymerase δ-catalyzed PCNA-dependent DNA chain elongation; (ii) catalyzing DNA-dependent ATP hydrolysis that was stimulated by PCNA and human single-stranded DNA binding protein; (iii) binding preferentially to DNA primer ends; and (iv) catalytically loading PCNA onto singly nicked circular DNA and catalytically removing PCNA from these DNA molecules.

Adsorption from a one-dimensional lattice gas and the Brunauer–Emmett–Teller equation

An exact treatment of adsorption from a one-dimensional lattice gas is used to eliminate and correct a well-known inconsistency in the Brunauer–Emmett–Teller (B.E.T.) equation—namely, Gibbs excess adsorption is not taken into account and the Gibbs integral diverges at the transition point. However, neither model should be considered realistic for experimental adsorption systems.

Studies on the interactions between human replication factor C and human proliferating cell nuclear antigen

Proliferating cell nuclear antigen (PCNA) is a processivity factor required for DNA polymerase δ (or ɛ)-catalyzed DNA synthesis. When loaded onto primed DNA templates by replication factor C (RFC), PCNA acts to tether the polymerase to DNA, resulting in processive DNA chain elongation. In this report, we describe the identification of two separate peptide regions of human PCNA spanning amino acids 36–55 and 196–215 that bind RFC by using the surface plasmon resonance technique. Site-directed mutagenesis of residues within these regions in human PCNA identified two specific sites that affected the biological activity of PCNA. Replacement of the aspartate 41 residue by an alanine, serine, or asparagine significantly impaired the ability of PCNA to (i) support the RFC/PCNA-dependent polymerase δ-catalyzed elongation of a singly primed DNA template; (ii) stimulate RFC-catalyzed DNA-dependent hydrolysis of ATP; (iii) be loaded onto DNA by RFC; and (iv) activate RFC-independent polymerase δ-catalyzed synthesis of poly dT. Introduction of an alanine at position 210 in place of an arginine also reduced the efficiency of PCNA in supporting RFC-dependent polymerase δ-catalyzed elongation of a singly primed DNA template. However, this mutation did not significantly alter the ability of PCNA to stimulate DNA polymerase δ in the absence of RFC but substantially lowered the efficiency of RFC-catalyzed reactions. These results are in keeping with a model in which surface exposed regions of PCNA interact with RFC and the subsequent loading of PCNA onto DNA orients the elongation complex in a manner essential for processive DNA synthesis.

Peroxynitrite does not decompose to singlet oxygen (1ΔgO2) and nitroxyl (NO−)

According to Khan et al. [Khan, A. U., Kovacic, D., Kolbanovskiy, A., Desai, M., Frenkel, K. & Geacintov, N. E. (2000) Proc. Natl. Acad. Sci. USA 97, 2984–2989], peroxynitrite (ONOO−) decomposes after protonation to singlet oxygen (1ΔgO2) and singlet oxonitrate (nitroxyl, 1NO−) in high yield. They claimed to have observed nitrosyl hemoglobin from the reaction of NO− with methemoglobin; however, contamination with hydrogen peroxide gave rise to ferryl hemoglobin, the spectrum of which was mistakenly assigned to nitrosyl hemoglobin. We have carried out UV–visible and EPR experiments with methemoglobin and hydrogen peroxide-free peroxynitrite and find that no NO− is formed. With this peroxynitrite preparation, no light emission from singlet oxygen at 1270 nm is observed, nor is singlet oxygen chemically trapped; however, singlet oxygen was trapped when hydrogen peroxide was also present, as previously described [Di Mascio, P., Bechara, E. J. H., Medeiros, M. H. G., Briviba, K. & Sies, H. (1994) FEBS Lett. 355, 287–289]. Quantum mechanical and thermodynamic calculations show that formation of the postulated intermediate, a cyclic form of peroxynitrous acid (trioxazetidine), and the products 1NO− and 1ΔgO2 requires Gibbs energies of ca. +415 kJ⋅mol−1 and ca. +180 kJ⋅mol−1, respectively. Our results show that the results of Khan et al. are best explained by interference from contaminating hydrogen peroxide left from the synthesis of peroxynitrite.