Polarization dynamics in vertical-cavity surface-emitting lasers with optical feedback through a quarter-wave plate

Square-wave switching of the intensities of the orthogonal linearly polarized components of the output of a vertical-cavity surface-emitting laser(VCSEL) found previously in experiments with polarization-changing optical feedback, is not found in rate equation models incorporating only birefringence and gain anisotropy, but is found in the model for VCSELs developed by San Miguel, Feng, and Moloney [M. San Miguel, Q. Feng, and J. V. Moloney, Phys. Rev. A 52, 1729 (1995)]. The dynamics is sensitive to both the feedback strength and the relaxation rate of the magnetization in the quantum well sublevels.Peer ReviewedPostprint (published version

Roadmap on optical rogue waves and extreme events

The pioneering paper 'Optical rogue waves' by Solli et al (2007 Nature 450 1054) started the new subfield in optics. This work launched a great deal of activity on this novel subject. As a result, the initial concept has expanded and has been enriched by new ideas. Various approaches have been suggested since then. A fresh look at the older results and new discoveries has been undertaken, stimulated by the concept of 'optical rogue waves'. Presently, there may not by a unique view on how this new scientific term should be used and developed. There is nothing surprising when the opinion of the experts diverge in any new field of research. After all, rogue waves may appear for a multiplicity of reasons and not necessarily only in optical fibers and not only in the process of supercontinuum generation. We know by now that rogue waves may be generated by lasers, appear in wide aperture cavities, in plasmas and in a variety of other optical systems. Theorists, in turn, have suggested many other situations when rogue waves may be observed. The strict definition of a rogue wave is still an open question. For example, it has been suggested that it is defined as 'an optical pulse whose amplitude or intensity is much higher than that of the surrounding pulses'. This definition (as suggested by a peer reviewer) is clear at the intuitive level and can be easily extended to the case of spatial beams although additional clarifications are still needed. An extended definition has been presented earlier by N Akhmediev and E Pelinovsky (2010 Eur. Phys. J. Spec. Top. 185 1-4). Discussions along these lines are always useful and all new approaches stimulate research and encourage discoveries of new phenomena. Despite the potentially existing disagreements, the scientific terms 'optical rogue waves' and 'extreme events' do exist. Therefore coordination of our efforts in either unifying the concept or in introducing alternative definitions must be continued. From this point of view, a number of the scientists who work in this area of research have come together to present their research in a single review article that will greatly benefit all interested parties of this research direction. Whether the authors of this 'roadmap' have similar views or different from the original concept, the potential reader of the review will enrich their knowledge by encountering most of the existing views on the subject. Previously, a special issue on optical rogue waves (2013 J. Opt. 15 060201) was successful in achieving this goal but over two years have passed and more material has been published in this quickly emerging subject. Thus, it is time for a roadmap that may stimulate and encourage further research.Peer ReviewedPostprint (author's final draft

The role of the accretion disk, dust, and jets in the ir emission of low-luminosity active galactic nuclei

We use recent high-resolution infrared (IR; 1-20 μm) photometry to examine the origin of the IR emission in low-luminosity active galactic nuclei (LLAGN). The data are compared with published model fits that describe the spectral energy distribution (SED) of LLAGN in terms of an advection-dominated accretion flow, truncated thin accretion disk, and jet. The truncated disk in these models is usually not luminous enough to explain the observed IR emission, and in all cases its spectral shape is much narrower than the broad IR peaks in the data. Synchrotron radiation from the jet appears to be important in very radio-loud nuclei, but the detection of strong silicate emission features in many objects indicates that dust must also contribute. We investigate this point by fitting the IR SED of NGC 3998 using dusty torus and optically thin (τmid-IR ∼ 1) dust shell models. While more detailed modeling is necessary, these initial results suggest that dust may account for the nuclear mid-IR emission of many LLAGN. © 2013. The American Astronomical Society. All rights reserved..A.A.-H. acknowledges support from the Spanish Plan Nacional de Astronomía y Astrofísica under grant AYA2009-05705-E, CRAfrom PN-AYA2010-21887-C04.04. R.N.was supported by an appointment to the NASA Postdoctoral Program at Goddard Space Flight Center, administered by Oak Ridge Associated Universities through a contract with NASA.Peer Reviewe

Efecto de las características del biorreactor y de su manejo sobre el desarrollo de cultivos embriogénicos de alcornoque

En el marco del proyecto SEFEAL-2, liderado por TRAGSA, se aplican protocolos de embriogénesis somática (ES) para desarrollar variedades de alcornoque de alta calidad y productividad. Al mismo tiempo se mejora la técnica de ES para abaratar los costes y permitir su aplicación a escala comercial. En el alcornoque, como en otras especies, el desarrollo comercial de la embriogénesis como técnica de multiplicación masiva se basa en el uso de biorreactores y medios líquidos agitados. El diseño del biorreactor, su sistema de cierre y el nivel de agitación determinan el grado de mezclado, el estrés hidrodinámico y el intercambio gaseoso, y por ello afectan tanto al crecimiento como al desarrollo de los cultivos embriogénicos. Mediante un ensayo factorial se testaron 3 tipos de envase y tres niveles de agitación. Los efectos sobre el intercambio gaseoso se estimaron a través de la tasa de transferencia de O2 (OTR) y su coeficiente volumétrico de transferencia de masa (KLa), y los efectos sobre el nivel de mezclado mediante el “shear force index” (SFI), un indicador de estrés hidrodinámico. El tipo de envase afectó básicamente al número total de agregados embriogénicos y a la frecuencia de formación de los agregados de mayor tamaño. El nivel de agitación tuvo mayores efectos que el tipo de envase tanto sobre el número como sobre el tamaño de los agregados. Para las condiciones ensayadas, que dieron lugar a valores de KLa comprendidos entre 0,11 h-1 y 1,47 h-1, la disponibilidad de oxígeno no pareció limitante. En cualquier caso, los efectos del tipo de envase y del nivel de agitación sobre los procesos de crecimiento y desarrollo de los materiales embriogénicos de alcornoque fueron complejos resultando muy significativa la interacción tipo de envase por nivel de agitación

Rational Engineering of Multiple Active Sites in an Ester Hydrolase

Effects of altering the properties of an active site in an enzymatic homogeneous catalyst have been extensively reported. However, the possibility of increasing the number of such sites, as commonly done in heterogeneous catalytic materials, remains unexplored, particularly because those have to accommodate appropriate residues in specific configurations. This possibility was investigated by using a serine ester hydrolase as the target enzyme. By using the Protein Energy Landscape Exploration software, which maps ligand diffusion and binding, we found a potential binding pocket capable of holding an extra catalytic triad and oxyanion hole contacts. By introducing two mutations, this binding pocket became a catalytic site. Its substrate specificity, substrate preference, and catalytic activity were different from those of the native site of the wild type ester hydrolase and other hydrolases, due to the differences in the active site architecture. Converting the binding pocket into an extra catalytic active site was proven to be a successful approach to create a serine ester hydrolase with two functional reactive groups. Our results illustrate the accuracy and predictive nature of modern modeling techniques, opening novel catalytic opportunities coming from the presence of different catalytic environments in single enzymes

Near-infrared polarimetric adaptive optics observations of NGC 1068: A torus created by a hydromagnetic outflow wind

et al.We present J′ and K′ imaging linear polarimetric adaptive optics observations of NGC 1068 using MMT-Pol on the 6.5-m MMT. These observations allow us to study the torus from a magnetohydrodynamical (MHD) framework. In a 0.5 arcsec (30 pc) aperture at K′, we find that polarization arising from the passage of radiation from the inner edge of the torus through magnetically aligned dust grains in the clumps is the dominant polarization mechanism, with an intrinsic polarization of 7.0 ± 2.2 per cent. This result yields a torus magnetic field strength in the range of 4–82 mG through paramagnetic alignment, and 139+11−20−20+11 mG through the Chandrasekhar–Fermi method. The measured position angle (P.A.) of polarization at K′ is found to be similar to the P.A. of the obscuring dusty component at few parsec scales using infrared interferometric techniques. We show that the constant component of the magnetic field is responsible for the alignment of the dust grains, and aligned with the torus axis on to the plane of the sky. Adopting this magnetic field configuration and the physical conditions of the clumps in the MHD outflow wind model, we estimate a mass outflow rate ≤0.17 M⊙ yr−1 at 0.4 pc from the central engine for those clumps showing near-infrared dichroism. The models used were able to create the torus in a time-scale of ≥105 yr with a rotational velocity of ≤1228 km s−1 at 0.4 pc. We conclude that the evolution, morphology and kinematics of the torus in NGC 1068 can be explained within a MHD framework.ELR and CP acknowledge support from the University of Texas at San Antonio. CP acknowledges support from NSF-0904421 grant. CP and TJJ acknowledge support from NSF-0704095 grant. AA-H acknowledges financial support from the Spanish Plan Nacional de Astronomía y Astrofisíca under grant AYA2012-31447. RN acknowledges support by FONDECYT grant No. 3140436. CRA is supported by a Marie Curie Intra European Fellowship within the 7th European Community Framework Programme (PIEF-GA-2012-327934).Peer Reviewe

IKZF1 Deletions with COBL Breakpoints Are Not Driven by RAG-Mediated Recombination Events in Acute Lymphoblastic Leukemia

IKZF1 deletion (ΔIKZF1) is an important predictor of relapse in both childhood and adult B-cell precursor acute lymphoblastic leukemia (B-ALL). Previously, we revealed that COBL is a hotspot for breakpoints in leukemia and could promote IKZF1 deletions. Through an international collaboration, we provide a detailed genetic and clinical picture of B-ALL with COBL rearrangements (COBL-r). Patients with B-ALL and IKZF1 deletion (n = 133) were included. IKZF1 ∆1-8 were associated with large alterations within chromosome 7: monosomy 7 (18%), isochromosome 7q (10%), 7p loss (19%), and interstitial deletions (53%). The latter included COBL-r, which were found in 12% of the IKZF1 ∆1-8 cohort. Patients with COBL-r are mostly classified as intermediate cytogenetic risk and frequently harbor ETV6, PAX5, CDKN2A/B deletions. Overall, 56% of breakpoints were located within COBL intron 5. Cryptic recombination signal sequence motifs were broadly distributed within the sequence of COBL, and no enrichment for the breakpoint cluster region was found. In summary, a diverse spectrum of alterations characterizes ΔIKZF1 and they also include deletion breakpoints within COBL. We confirmed that COBL is a hotspot associated with ΔIKZF1, but these rearrangements are not driven by RAG-mediated recombination