Catalogue of the morphological features in the Spitzer Survey of Stellar Structure in Galaxies (S4^4G)

A catalogue of the morphological features for the complete Spitzer Survey of Stellar Structure in Galaxies (S$^4$G), including 2352 nearby galaxies, is presented. The measurements are made using 3.6 $\mu$m images, largely tracing the old stellar population; at this wavelength the effects of dust are also minimal. The measured features are the sizes, ellipticities, and orientations of bars, rings, ringlenses, and lenses. Measured in a similar manner are also barlenses (lens-like structures embedded in the bars), which are not lenses in the usual sense, being rather the more face-on counterparts of the boxy/peanut structures in the edge-on view. In addition, pitch angles of spiral arm segments are measured for those galaxies where they can be reliably traced. More than one pitch angle may appear for a single galaxy. All measurements are made in a human-supervised manner so that attention is paid to each galaxy. We used isophotal analysis, unsharp masking, and fitting ellipses to measured structures. We find that the sizes of the inner rings and lenses normalized to barlength correlate with the galaxy mass: the normalized sizes increase toward the less massive galaxies; it has been suggested that this is related to the larger dark matter content in the bar region in these systems. Bars in the low mass galaxies are also less concentrated, likely to be connected to the mass cut-off in the appearance of the nuclear rings and lenses. We also show observational evidence that barlenses indeed form part of the bar, and that a large fraction of the inner lenses in the non-barred galaxies could be former barlenses in which the thin outer bar component has dissolved.Comment: 17 pages, 12 figures, accepted for publication in A&

SUMOylation regulates LKB1 localization and its oncogenic activity in liver cancer

BACKGROUND: Even though liver kinase B1 (LKB1) is usually described as a tumor suppressor in a wide variety of tissues, it has been shown that LKB1 aberrant expression is associated with bad prognosis in Hepatocellular Carcinoma (HCC). METHODS: Herein we have overexpressed LKB1 in human hepatoma cells and by using histidine pull-down assay we have investigated the role of the hypoxia-related post-translational modification of Small Ubiquitin-related Modifier (SUMO)ylation in the regulation of LKB1 oncogenic role. Molecular modelling between LKB1 and its interactors, involved in regulation of LKB1 nucleocytoplasmic shuttling and LKB1 activity, was performed. Finally, high affinity SUMO binding entities-based technology were used to validate our findings in a pre-clinical mouse model and in clinical HCC. FINDINGS: We found that in human hepatoma cells under hypoxic stress, LKB1 overexpression increases cell viability and aggressiveness in association with changes in LKB1 cellular localization. Moreover, by using site-directed mutagenesis, we have shown that LKB1 is SUMOylated by SUMO-2 at Lys178 hampering LKB1 nucleocytoplasmic shuttling and fueling hepatoma cell growth. Molecular modelling of SUMO modified LKB1 further confirmed steric impedance between SUMOylated LKB1 and the STe20-Related ADaptor cofactor (STRADα), involved in LKB1 export from the nucleus. Finally, we provide evidence that endogenous LKB1 is modified by SUMO in pre-clinical mouse models of HCC and clinical HCC, where LKB1 SUMOylation is higher in fast growing tumors. INTERPRETATION: Overall, SUMO-2 modification of LKB1 at Lys178 mediates LKB1 cellular localization and its oncogenic role in liver cancer. FUND: This work was supported by grants from NIH (US Department of Health and Human services)-R01AR001576-11A1 (J.M.M and M.L.M-C.), Gobierno Vasco-Departamento de Salud 2013111114 (to M.L.M.-C), ELKARTEK 2016, Departamento de Industria del Gobierno Vasco (to M.L.M.-C), MINECO: SAF2017-87301-R and SAF2014-52097-R integrado en el Plan Estatal de Investigación Cientifica y Técnica y Innovación 2013-2016 cofinanciado con Fondos FEDER (to M.L.M.-C and J.M.M., respectively), BFU2015-71017/BMC MINECO/FEDER, EU (to A.D.Q. and I.D.M.), BIOEF (Basque Foundation for Innovation and Health Research): EITB Maratoia BIO15/CA/014; Instituto de Salud Carlos III:PIE14/00031, integrado en el Plan Estatal de Investigación Cientifica y Técnica y Innovacion 2013-2016 cofinanciado con Fondos FEDER (to M.L.M.-C and J.M.M), Asociación Española contra el Cáncer (T.C.D, P·F-T and M.L.M-C), Daniel Alagille award from EASL (to T.C.D), Fundación Científica de la Asociación Española Contra el Cancer (AECC Scientific Foundation) Rare Tumor Calls 2017 (to M.L.M and M.A), La Caixa Foundation Program (to M.L.M), Programma di Ricerca Regione-Università 2007-2009 and 2011-2012, Regione Emilia-Romagna (to E.V.), Ramón Areces Foundation and the Andalusian Government (BIO-198) (A.D.Q. and I.D.M.), ayudas para apoyar grupos de investigación del sistema Universitario Vasco IT971-16 (P.A.), MINECO:SAF2015-64352-R (P.A.), Institut National du Cancer, FRANCE, INCa grant PLBIO16-251 (M.S.R.), MINECO - BFU2016-76872-R to (E.B.). Work produced with the support of a 2017 Leonardo Grant for Researchers and Cultural Creators, BBVA Foundation (M.V-R). Finally, Ciberehd_ISCIII_MINECO is funded by the Instituto de Salud Carlos III. We thank MINECO for the Severo Ochoa Excellence Accreditation to CIC bioGUNE (SEV-2016-0644). Funding sources had no involvement in study design; in the collection, analysis, and interpretation of data; in the writing of the report; and in the decision to submit the paper for publication

HuR biological function involves RRM3-mediated dimerization and RNA binding by all three RRMs

HuR/ELAVL1 is an RNA-binding protein involved in differentiation and stress response that acts primarily by stabilizing messenger RNA (mRNA) targets. HuR comprises three RNA recognition motifs (RRMs) where the structure and RNA binding of RRM3 and of full-length HuR remain poorly understood. Here, we report crystal structures of RRM3 free and bound to cognate RNAs. Our structural, NMR and biochemical data show that RRM3 mediates canonical RNA interactions and reveal molecular details of a dimerization interface localized on the α-helical face of RRM3. NMR and SAXS analyses indicate that the three RRMs in full-length HuR are flexibly connected in the absence of RNA, while they adopt a more compact arrangement when bound to RNA. Based on these data and crystal structures of tandem RRM1,2-RNA and our RRM3-RNA complexes, we present a structural model of RNA recognition involving all three RRM domains of full-length HuR. Mutational analysis demonstrates that RRM3 dimerization and RNA binding is required for functional activity of full-length HuR in vitro and to regulate target mRNAs levels in human cells, thus providing a fine-tuning for HuR activity in vivo.España, MINECO BFU2015-71017España, Junta de Andalucía CVI-BIO198; P11-CVI7216 to I.D.M

PopStar Evolutionary Synthesis Models II: Optical emission-line spectra from Giant H{\sc ii} regions

This is the second paper of a series reporting the results from the PopStar evolutionary synthesis models. Here we present synthetic emission line spectra of H{\sc ii} regions photoionized by young star clusters, for seven values of cluster masses and for ages between 0.1 and 5.2 Myr. The ionizing Spectral Energy Distributions (SEDs) are those obtained by the PopStar code \citep*{mgb09} for six different metallicities, with a very low metallicity set, Z=0.0001, not included in previous similar works. We assume that the radius of the H{\sc ii} region is the distance at which the ionized gas is deposited by the action of the mechanical energy of the winds and supernovae from the central ionizing young cluster. In this way the ionization parameter is eliminated as free argument, since now its value is obtained from the cluster physical properties (mass, age and metallicity) and from the gaseous medium characteristics (density and abundances). We discuss our results and compare them with those from previous models and also with a large and data set of giant H{\sc ii} regions for which abundances have been derived in a homogeneous manner. The values of the [OIII] lines (at $\lambda\lambda$ 4363, 4959, 5007\AA) in the lowest metallicity nebulae are found to be very weak and similar to those coming from very high metallicity regions (solar or over-solar). Thus, the sole use of the oxygen lines is not enough to distinguish between very low and very high metallicity regions. In these cases we emphasize the need of the additional support of alternative metallicity tracers, like the [SIII] lines in the near-\textit{IR}.Comment: 20 pages, 26 figures, accepted for publication in MNRAS Main Journa

Morpho-kinematic analysis of the point-symmetric, bipolar planetary nebulae Hb 5 and K 3-17, a pathway to poly-polarity

The kinematics of the bipolar planetary nebulae Hb~5 and K 3-17 are investigated in detail by means of a comprehensive set of spatially resolved high spectral resolution, long-slit spectra. Both objects share particularly interesting characteristics, such as a complex filamentary, rosette-type nucleus, axial point-symmetry and very fast bipolar outflows. The kinematic information of Hb~5 is combined with {\it HST} imagery to construct a detailed 3D model of the nebula using the code SHAPE. The model shows that the large scale lobes are growing in a non-homologous way. The filamentary loops in the core are proven to actually be secondary lobes emerging from what appears to be a randomly punctured, dense, gaseous core and the material that forms the point symmetric structure flows within the lobes with a distinct kinematic pattern and its interaction with the lobes has had a shaping effect on them. Hb~5 and K~3-17 may represent a class of fast evolving planetary nebulae that will develop poly-polar characteristics once the nebular core evolves and expands.Comment: 19 pages, 8 figures. To appear in The Astrophysical Journa

El paradigma de la complejidad como instrumento teórico y metodológico en la investigación didáctica sobre la contaminación y sobre la energía

En dos investigaciones recientes (Cano, 2008; García, Rodríguez y Solís, 2008; Rodríguez, 2008), hemos utilizado el Paradigma de la Complejidad como instrumento teórico que ha orientado el diseño y desarrollo de dichas investigaciones. En la primera investigación (Cano, 2008), se realizó un estudio pormenorizado del proceso de construcción de conocimiento relevante y significativo sobre la contaminación del agua con alumnos de cuarto de ESO. En la segunda (García, Rodríguez y Solís, 2008; Rodríguez, 2008), se realizó una descripción del desarrollo de una experiencia de Agenda 21 Escolar, centrada en el tratamiento didáctico del uso de la energía en Primaria y Secundaria

Dimerization model of the C-terminal RNA Recognition Motif of HuR

In PressHuman antigen R (HuR) is a ubiquitous 32kDa protein comprising three RNA Recognition Motifs (RRMs), whose main function is to bind Adenylate and uridylate Rich Elements (AREs) in 3′ UnTranslated Regions (UTRs) of mRNAs. In addition to binding RNA molecules, the third domain (RRM3) is involved in HuR oligomerization and apoptotic signaling. The RRM3 monomer is able to dimerize, with its self-binding affinity being dependent on ionic strength. Here we provide a deeper structural insight into the nature of the encounter complexes leading to the formation of RRM3 dimers by using Brownian Dynamics and Molecular Dynamics. Our computational data show that the initial unspecific encounter follows a downhill pathway until reaching an optimum conformation stabilized by hydrophobic interactions.I.D.-M. wishes to thank the Andalusian Government (P07-CVI-02896, P11-CVI-07216 and BIO198) for financial support.Peer reviewe

The Evolution of the Kinematics of Nebular Shells in Planetary Nebulae in the Milky Way Bulge

We study the line widths in the [\ion{O}{3}]$\lambda$5007 and H$\alpha$ lines for two groups of planetary nebulae in the Milky Way bulge based upon spectroscopy obtained at the Observatorio Astron\'omico Nacional in the Sierra San Pedro M\'artir (OAN-SPM) using the Manchester Echelle Spectrograph. The first sample includes objects early in their evolution, having high H$\beta$ luminosities, but [\ion{O}{3}]$\lambda 5007/\mathrm H\beta < 3$. The second sample comprises objects late in their evolution, with \ion{He}{2} $\lambda 4686/\mathrm H\beta > 0.5$. These planetary nebulae represent evolutionary phases preceeding and following those of the objects studied by Richer et al. (2008). Our sample of planetary nebulae with weak [\ion{O}{3}]$\lambda$5007 has a line width distribution similar to that of the expansion velocities of the envelopes of AGB stars, and shifted to systematically lower values as compared to the less evolved objects studied by Richer et al. (2008). The sample with strong \ion{He}{2} $\lambda 4686$ has a line width distribution indistinguishable from that of the more evolved objects from Richer et al. (2008), but a distribution in angular size that is systematically larger and so they are clearly more evolved. These data and those of Richer et al. (2008) form a homogeneous sample from a single Galactic population of planetary nebulae, from the earliest evolutionary stages until the cessation of nuclear burning in the central star. They confirm the long-standing predictions of hydrodynamical models of planetary nebulae, where the kinematics of the nebular shell are driven by the evolution of the central star.Comment: accepted for publication in the Astrophysical Journa