Studying DNA Double-Strand Break Repair: An Ever-Growing Toolbox

To ward off against the catastrophic consequences of persistent DNA double-strand breaks (DSBs), eukaryotic cells have developed a set of complex signaling networks that detect these DNA lesions, orchestrate cell cycle checkpoints and ultimately lead to their repair. Collectively, these signaling networks comprise the DNA damage response (DDR). The current knowledge of the molecular determinants and mechanistic details of the DDR owes greatly to the continuous development of ground-breaking experimental tools that couple the controlled induction of DSBs at distinct genomic positions with assays and reporters to investigate DNA repair pathways, their impact on other DNA-templated processes and the specific contribution of the chromatin environment. In this review, we present these tools, discuss their pros and cons and illustrate their contribution to our current understanding of the DDR.European Research Council (ERC-2014-CoG 647344

Graphical tools for helping firefighters in victim rescues. Assessment during a live fire training program

This study compares three different methods to communicate the features of a building to firefighters, before starting a victim rescue during a live fire training program. Participants in this study did not previously know the hotel used for developing the activities. The effective number of participants was 144, all professional firefighters. One of the exercises in this training program was thoroughly designed not only for training purposes, but also to test different guide versions. The innovative guides were based on two different technologies (simple stapled sheets of paper and digital content displayed on a tablet) and were developed using several graphical tools (conventional pictures, aerial images captured with drone, 3D models, 360° pictures, etc.). With the intention of facilitating firefighters’ activity during a victim rescue, results obtained using these tools were compared with a conventional communication method. The assessment methodology applied in this study included the use of an anonym questionnaire, as well as the analysis of the videos captured with action cameras, attached with a harness to the chest of two of the four firefighters in every team, during the training activities. Thanks to these videos, it was possible to compare the time required for rescuing the victim and to observe followed paths, visited rooms and substantial information about the tested tools, including valuable participants’ comments. For in emergency situations, the tools described in this paper were preferred to the already existent self-protection plans, usually considered too extensive for fast communication, a matter of special importance in victim rescues

Relationship between Hubble type and spectroscopic class in local galaxies

We compare the Hubble type and the spectroscopic class of the galaxies with spectra in SDSS/DR7. As it is long known, elliptical galaxies tend to be red whereas spiral galaxies tend to be blue, however, this relationship presents a large scatter, which we measure and quantify in detail. We compare the Automatic Spectroscopic K-means based classification (ASK) with most of the commonly used morphological classifications. All of them provide consistent results. Given a spectral class, the morphological type wavers with a standard deviation between 2 and 3 T types, and the same large dispersion characterizes the variability of spectral classes fixed the morphological type. The distributions of Hubble types given an ASK class are very skewed -- they present long tails that go to the late morphological types for the red galaxies, and to the early morphological types for the blue spectroscopic classes. The scatter is not produced by problems in the classification, and it remains when particular subsets are considered. A considerable fraction of the red galaxies are spirals (40--60 %), but they never present very late Hubble types (Sd or later). Even though red spectra are not associated with ellipticals, most ellipticals do have red spectra: 97 % of the ellipticals in the morphological catalog by Nair & Abraham, used here for reference, belong to ASK 0, 2 or 3. It contains only a 3 % of blue ellipticals. The galaxies in the green valley class (ASK~5) are mostly spirals, and the AGN class (ASK 6) presents a large scatter of Hubble types from E to Sd. From redshift 0.25 to now the galaxies redden from ASK 2 to ASK 0, as expected from the passive evolution of their stellar populations. Two of the ASK classes (1 and 4) gather edge-on spirals, a property of interest in studies requiring knowing the intrinsic shape of a galaxy (e.g., weak lensing calibration).Comment: Accepted for publication in ApJ. 16 pages. 12 Figs. 2 summary table

Systemic oncolytic adenovirus delivered in mesenchymal carrier cells modulate tumor infiltrating immune cells and tumor microenvironment in mice with neuroblastoma.

Celyvir (autologous mesenchymal cells -MSCs- that carry an oncolytic adenovirus) is a new therapeutic strategy for metastatic tumors developed by our research group over the last decade. There are limitations for studying the immune effects of human oncolytic adenoviruses in murine models since these viruses do not replicate naturally in these animals. The use of xenografts in immunodeficient mice prevent assessing important clinical aspects of this therapy such as the antiadenoviral immune response or the possible intratumoral immune changes, both of tumor infiltrating leukocytes and of the microenvironment. In our strategy, the presence of MSCs in the medicinal product adds an extra level of complexity. We present here a murine model that overcomes many of these limitations. We found that carrier cells outcompeted intravenous administration of naked particles in delivering the oncolytic virus into the tumor masses. The protection that MSCs could provide to the oncolytic adenovirus did not preclude the development of an antiadenoviral immune response. However, the presence of circulating antiadenoviral antibodies did not prevent changes detected at the tumor masses: increased infiltration and changes in the quality of immune cells per unit of tumor volume, and a less protumoral and more inflammatory profile of the tumor microenvironment. We believe that the model described here will enable the study of crucial events related to the immune responses affecting both the medicinal product and the tumor

Table olive wastewater as a potential source of biophenols for valorization : a mini review

The table olive industry generates high amounts of wastewater annually during the alkaline treatment, fermentation, and washing steps of olives. High conductivity and salt content, as well as the high organic and biophenol contents of these waters, is a worldwide problem, especially in the Mediterranean region, which is the major table olive producing area. There is a wide variety of bioactives found in wastewater derived from table olive processing. The main compounds of table olive wastewater, such as those derived from phenolic, hydrocarbon, and sugar fractions, can be recovered and reused. In this review, the table olive manufacturing processes and the volumes and composition of wastewater generated from the different methods of table olive processing are discussed. In addition, biophenols of table olive water and their biological activities are also introduced. The high concentrations of valuable biophenols, such as tyrosol and hydroxytyrosol, show promising potential for valorizing table olive wastewater; however, more research is needed in this area

Camelids in the south of the Iberian Peninsula in Roman and medieval times. Osteological evidence from the city of Cordoba (Spain)

This paper presents the results obtained concerning the possible presence of camelids in the city of Cordoba (Spain) in Roman and medieval times, after the review of all the faunal assemblages corresponding to these historical periods deposited in the Provincial Archaeological Museum of the city. This research has allowed the recovery and contextualization of nine dromedary bone remains corresponding to nine individuals, four of which have been dated by C. A stable isotope analysis has also been carried out which indicates the possible arrival of these animals from other provinces of the empire in Roman times and from North Africa in medieval times. Besides, we carried out a bibliographical update of all bone remains found in the Iberian Peninsula for the periods analyzed, concluding that the main use of them was for transporting and manufacturing different tools.This study have been funded through the Andalusian Regional Government’s I + D + i-FEDER Andalucía 2014-2020 program. C.A.M.E.L. Historical contextualization, Diet, Morphology, Genetic Study, and Lineage through the bone remains of camels recovered in archaeological sites in the southern Iberian Peninsula (Ref. 1380946-F) and Ministry of Science and Innovation of Spain through European Regional [SUMHAL, LIFEWATCH-2019-09-CSIC-13, POPE 2014-2020]. Both Dr. José A. Riquelme Cantal and Dr. Juan Manuel Garrido Anguita are the principal investigators leading the projects that have funded this research. Funding for open access charge: Universidad de Córdoba /CBUA

Identification of tidal features in deep optical galaxy images with Convolutional Neural Networks

Interactions between galaxies leave distinguishable imprints in the form of tidal features which hold important clues about their mass assembly. Unfortunately, these structures are difficult to detect because they are low surface brightness features so deep observations are needed. Upcoming surveys promise several orders of magnitude increase in depth and sky coverage, for which automated methods for tidal feature detection will become mandatory. We test the ability of a convolutional neural network to reproduce human visual classifications for tidal detections. We use as training $\sim$6000 simulated images classified by professional astronomers. The mock Hyper Suprime Cam Subaru (HSC) images include variations with redshift, projection angle and surface brightness ($\mu_{lim}$ =26-35 mag arcsec$^{-2}$). We obtain satisfactory results with accuracy, precision and recall values of Acc=0.84, P=0.72 and R=0.85, respectively, for the test sample. While the accuracy and precision values are roughly constant for all surface brightness, the recall (completeness) is significantly affected by image depth. The recovery rate shows strong dependence on the type of tidal features: we recover all the images showing shell features and 87% of the tidal streams; these fractions are below 75% for mergers, tidal tails and bridges. When applied to real HSC images, the performance of the model worsens significantly. We speculate that this is due to the lack of realism of the simulations and take it as a warning on applying deep learning models to different data domains without prior testing on the actual data.Comment: 13 pages, 10 figures, accepted for publication in MNRA

Transfer learning for galaxy morphology from one survey to another

© 2018 The Author(s). Published by Oxford University Press on behalf of the Royal Astronomical Society.Deep Learning (DL) algorithms for morphological classification of galaxies have proven very successful, mimicking (or even improving) visual classifications. However, these algorithms rely on large training samples of labelled galaxies (typically thousands of them). A key question for using DL classifications in future Big Data surveys is how much of the knowledge acquired from an existing survey can be exported to a new dataset, i.e. if the features learned by the machines are meaningful for different data. We test the performance of DL models, trained with Sloan Digital Sky Survey (SDSS) data, on Dark Energy survey (DES) using images for a sample of $\sim$5000 galaxies with a similar redshift distribution to SDSS. Applying the models directly to DES data provides a reasonable global accuracy ($\sim$ 90%), but small completeness and purity values. A fast domain adaptation step, consisting in a further training with a small DES sample of galaxies ($\sim$500-300), is enough for obtaining an accuracy > 95% and a significant improvement in the completeness and purity values. This demonstrates that, once trained with a particular dataset, machines can quickly adapt to new instrument characteristics (e.g., PSF, seeing, depth), reducing by almost one order of magnitude the necessary training sample for morphological classification. Redshift evolution effects or significant depth differences are not taken into account in this study.Peer reviewedFinal Accepted Versio

Dissecting the morphological and spectroscopic properties of galaxies in the local Universe: I. Elliptical galaxies

We revisit the scaling relations and star-forming histories of local elliptical galaxies using a novel selection method applied to the Sloan Digital Sky Survey DR7. We combine two probability-based automated spectroscopic and morphological classifications of about 600000 galaxies with z<0.25 to isolate true elliptical galaxies. Our sample selection method does not introduce artificial cuts in the parameters describing the galaxy but instead it associates to every object a weight measuring the probability of being in a given spectro-morphological class. Thus the sample minimizes the selection biases. We show that morphologically defined ellipticals are basically distributed in 3 spectral classes, which dominate at different stellar masses. The bulk of the population (about 50%) is formed by a well defined class of galaxies with old stellar populations that formed their stars at very early epochs in a short episode of star formation. They dominate the scaling relations of elliptical galaxies known from previous works and represent the canonical elliptical class. At the low mass end, we find a population of slightly larger ellipticals, with smaller velocity dispersions at fixed stellar mass, which seem to have experienced a more recent episode of star formation probably triggered by gas-rich minor mergers. The high mass end tends to be dominated by a third spectral class, slightly more metal rich and with more efficient stellar formation than the reference class. This third class contributes to the curvature of the mass-size relation at high masses reported in previous works. Our method is therefore able to isolate typical spectra of elliptical galaxies following different evolutive pathways.Comment: 15 pages, 16 figures. Accepted for publication in A&

The Importance of Major Mergers in the Build Up of Stellar Mass in Brightest Cluster Galaxies at \u3cem\u3ez\u3c/em\u3e = 1

Recent independent results from numerical simulations and observations have shown that brightest cluster galaxies (BCGs) have increased their stellar mass by a factor of almost 2 between z ∼ 0.9 and z ∼ 0.2. The numerical simulations further suggest that more than half this mass is accreted through major mergers. Using a sample of 18 distant galaxy clusters with over 600 spectroscopically confirmed cluster members between them, we search for observational evidence that major mergers do play a significant role. We find a major merger rate of 0.38 ± 0.14 mergers per Gyr at z ∼ 1. While the uncertainties, which stem from the small size of our sample, are relatively large, our rate is consistent with the results that are derived from numerical simulations. If we assume that this rate continues to the present day and that half of the mass of the companion is accreted on to the BCG during these mergers, then we find that this rate can explain the growth in the stellar mass of the BCGs that is observed and predicted by simulations. Major mergers therefore appear to be playing an important role, perhaps even the dominant one, in the build up of stellar mass in these extraordinary galaxies