Abasy Atlas: a comprehensive inventory of systems, global network properties and systems-level elements across bacteria

Ibarra-Arellano MA, Campos-Gonzalez AI, Trevino-Quintanilla LG, Tauch A, Freyre-Gonzalez JA. Abasy Atlas: a comprehensive inventory of systems, global network properties and systems-level elements across bacteria. DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION. 2016;2016: baw089.The availability of databases electronically encoding curated regulatory networks and of high-throughput technologies and methods to discover regulatory interactions provides an invaluable source of data to understand the principles underpinning the organization and evolution of these networks responsible for cellular regulation. Nevertheless, data on these sources never goes beyond the regulon level despite the fact that regulatory networks are complex hierarchical-modular structures still challenging our understanding. This brings the necessity for an inventory of systems across a large range of organisms, a key step to rendering feasible comparative systems biology approaches. In this work, we take the first step towards a global understanding of the regulatory networks organization by making a cartography of the functional architectures of diverse bacteria. Abasy (Across-bacteria systems) Atlas provides a comprehensive inventory of annotated functional systems, global network properties and systems-level elements (global regulators, modular genes shaping functional systems, basal machinery genes and intermodular genes) predicted by the natural decomposition approach for reconstructed and meta-curated regulatory networks across a large range of bacteria, including pathogenically and biotechnologically relevant organisms. The meta-curation of regulatory datasets provides the most complete and reliable set of regulatory interactions currently available, which can even be projected into subsets by considering the force or weight of evidence supporting them or the systems that they belong to. Besides, Abasy Atlas provides data enabling large-scale comparative systems biology studies aimed at understanding the common principles and particular lifestyle adaptions of systems across bacteria. Abasy Atlas contains systems and system-level elements for 50 regulatory networks comprising 78 649 regulatory interactions covering 42 bacteria in nine taxa, containing 3708 regulons and 1776 systems. All this brings together a large corpus of data that will surely inspire studies to generate hypothesis regarding the principles governing the evolution and organization of systems and the functional architectures controlling them

Targeting and retention of HPV16 E7 to the endoplasmic reticulum enhances immune tumour protection

The endoplasmic reticulum (ER) is where the major histocompatibility complex (MHC) class I molecules are loaded with epitopes to cause an immune cellular response. Most of the protein antigens are degraded in the cytoplasm to amino acids and few epitopes reach the ER. Antigen targeting of this organelle by Calreticulin (CRT) fusion avoids this degradation and enhances the immune response. We constructed a recombinant adenovirus to express the E7 antigen with an ER-targeting signal peptide (SP) plus an ER retention signal (KDEL sequence). In cell-culture experiments we demonstrated that this new E7 antigen, SP-E7-KDEL, targeted the ER. Infection of mice with this recombinant adenovirus that expresses SP-E7-KDEL showed interferon induction and tumour-protection response, similar to that provided by an adenovirus expressing the E7 antigen fused to CRT. This work demonstrated that just by adding a SP and the KDEL sequence, antigens can be targeted and retained in the ER with a consequent enhancement of immune response and tumour protection. These results will have significant clinical applications

Treatment with tocilizumab or corticosteroids for COVID-19 patients with hyperinflammatory state: a multicentre cohort study (SAM-COVID-19)

Objectives: The objective of this study was to estimate the association between tocilizumab or corticosteroids and the risk of intubation or death in patients with coronavirus disease 19 (COVID-19) with a hyperinflammatory state according to clinical and laboratory parameters. Methods: A cohort study was performed in 60 Spanish hospitals including 778 patients with COVID-19 and clinical and laboratory data indicative of a hyperinflammatory state. Treatment was mainly with tocilizumab, an intermediate-high dose of corticosteroids (IHDC), a pulse dose of corticosteroids (PDC), combination therapy, or no treatment. Primary outcome was intubation or death; follow-up was 21 days. Propensity score-adjusted estimations using Cox regression (logistic regression if needed) were calculated. Propensity scores were used as confounders, matching variables and for the inverse probability of treatment weights (IPTWs). Results: In all, 88, 117, 78 and 151 patients treated with tocilizumab, IHDC, PDC, and combination therapy, respectively, were compared with 344 untreated patients. The primary endpoint occurred in 10 (11.4%), 27 (23.1%), 12 (15.4%), 40 (25.6%) and 69 (21.1%), respectively. The IPTW-based hazard ratios (odds ratio for combination therapy) for the primary endpoint were 0.32 (95%CI 0.22-0.47; p < 0.001) for tocilizumab, 0.82 (0.71-1.30; p 0.82) for IHDC, 0.61 (0.43-0.86; p 0.006) for PDC, and 1.17 (0.86-1.58; p 0.30) for combination therapy. Other applications of the propensity score provided similar results, but were not significant for PDC. Tocilizumab was also associated with lower hazard of death alone in IPTW analysis (0.07; 0.02-0.17; p < 0.001). Conclusions: Tocilizumab might be useful in COVID-19 patients with a hyperinflammatory state and should be prioritized for randomized trials in this situatio

4to. Congreso Internacional de Ciencia, Tecnología e Innovación para la Sociedad. Memoria académica

Este volumen acoge la memoria académica de la Cuarta edición del Congreso Internacional de Ciencia, Tecnología e Innovación para la Sociedad, CITIS 2017, desarrollado entre el 29 de noviembre y el 1 de diciembre de 2017 y organizado por la Universidad Politécnica Salesiana (UPS) en su sede de Guayaquil. El Congreso ofreció un espacio para la presentación, difusión e intercambio de importantes investigaciones nacionales e internacionales ante la comunidad universitaria que se dio cita en el encuentro. El uso de herramientas tecnológicas para la gestión de los trabajos de investigación como la plataforma Open Conference Systems y la web de presentación del Congreso http://citis.blog.ups.edu.ec/, hicieron de CITIS 2017 un verdadero referente entre los congresos que se desarrollaron en el país. La preocupación de nuestra Universidad, de presentar espacios que ayuden a generar nuevos y mejores cambios en la dimensión humana y social de nuestro entorno, hace que se persiga en cada edición del evento la presentación de trabajos con calidad creciente en cuanto a su producción científica. Quienes estuvimos al frente de la organización, dejamos plasmado en estas memorias académicas el intenso y prolífico trabajo de los días de realización del Congreso Internacional de Ciencia, Tecnología e Innovación para la Sociedad al alcance de todos y todas

Global urban environmental change drives adaptation in white clover

Urbanization transforms environments in ways that alter biological evolution. We examined whether urban environmental change drives parallel evolution by sampling 110,019 white clover plants from 6169 populations in 160 cities globally. Plants were assayed for a Mendelian antiherbivore defense that also affects tolerance to abiotic stressors. Urban-rural gradients were associated with the evolution of clines in defense in 47% of cities throughout the world. Variation in the strength of clines was explained by environmental changes in drought stress and vegetation cover that varied among cities. Sequencing 2074 genomes from 26 cities revealed that the evolution of urban-rural clines was best explained by adaptive evolution, but the degree of parallel adaptation varied among cities. Our results demonstrate that urbanization leads to adaptation at a global scale

La genealogía de los niños de la calle y su educación en los centros de internamiento en México

Los niños y niñas de la calle y en la calle no sólo enfrentan problemas en la sociedad, sino también dentro de las instituciones que los controlan punitivamente. Los hoy llamados Centros de Internamiento han sido parte de diversas instancias gubernamentales, las cuales aplican a los niños y niñas programas educativos paliativos. Actualmente, los niños y niñas son llamados adolescentes para poder ser juzgados como sujetos adultos. El problema de los sujetos menores delincuentes no es problema de justicia, es un problema de educación; para tal fin debe hacerse cargo una institución educativa que tenga la infraestructura y los recursos pedagógicos para atenderlos.-1. Introducción. -2. El marco legal de los niños y niñas. -3. De lo educativo a lo punitivo de los niños y niñas de la calle y en la calle. -4. La Secretaría de Justicia y la Escuela Correccional. -5. La Administración de Justicia de Menores: una realidad. -6. Los programas educativos en el Centro de Atención Especial Dr. Alfonso Quiroz Cuarón: Una prisión de menores. -7. Reflexiones finales. -Fuentes documentales primarias y secundarias. -Lista de referencias

Effect of Magnesium on the Hydrophobicity of Sphalerite

The use of untreated recycled water has negative effects in the flotation of zinc sulfide ores due to the presence of dissolved species, such as magnesium and calcium. Although it has been found that magnesium is a more potent depressant than calcium, it has not been investigated in this role or for the effect of adding sodium carbonate. The results of an investigation to evaluate the effect of magnesium on the hydrophobicity of Cu-activated sphalerite conditioned with Sodium Isopropyl Xanthate (SIPX) are presented. Zeta potential of natural and Cu-activated sphalerite as a function of the conditioning pH and Cu(II) concentration, respectively, was first evaluated. Later, the effect of pH and presence of magnesium on the contact angle of Cu-activated sphalerite conditioned with SIPX was studied; it was also evaluated the effect of sodium carbonate to counteract the effect of magnesium. Cu-activation enhances the zeta potential of sphalerite up to a concentration of 5 mg/L. Contact angle tests, thermodynamic simulation, and surface analysis showed that magnesium hydroxide precipitates on the sphalerite surface at pH 9.6, decreasing its hydrophobicity. Addition of sodium carbonate as alkalinizing agent precipitates the magnesium in the form of a species that remained dispersed in the bulk solution, favoring the contact angle of Cu-activated sphalerite and, consequently, its hydrophobicity. It is concluded that the use of sodium carbonate as alkalinizing agent favors the precipitation of magnesium as hydromagnesite (Mg5(OH)2(CO3)4∙4H2O) instead of hydroxide allowing the recovery of sphalerite

Effect of Magnesium on the Hydrophobicity of Sphalerite

The use of untreated recycled water has negative effects in the flotation of zinc sulfide ores due to the presence of dissolved species, such as magnesium and calcium. Although it has been found that magnesium is a more potent depressant than calcium, it has not been investigated in this role or for the effect of adding sodium carbonate. The results of an investigation to evaluate the effect of magnesium on the hydrophobicity of Cu-activated sphalerite conditioned with Sodium Isopropyl Xanthate (SIPX) are presented. Zeta potential of natural and Cu-activated sphalerite as a function of the conditioning pH and Cu(II) concentration, respectively, was first evaluated. Later, the effect of pH and presence of magnesium on the contact angle of Cu-activated sphalerite conditioned with SIPX was studied; it was also evaluated the effect of sodium carbonate to counteract the effect of magnesium. Cu-activation enhances the zeta potential of sphalerite up to a concentration of 5 mg/L. Contact angle tests, thermodynamic simulation, and surface analysis showed that magnesium hydroxide precipitates on the sphalerite surface at pH 9.6, decreasing its hydrophobicity. Addition of sodium carbonate as alkalinizing agent precipitates the magnesium in the form of a species that remained dispersed in the bulk solution, favoring the contact angle of Cu-activated sphalerite and, consequently, its hydrophobicity. It is concluded that the use of sodium carbonate as alkalinizing agent favors the precipitation of magnesium as hydromagnesite (Mg5(OH)2(CO3)4&#8729;4H2O) instead of hydroxide allowing the recovery of sphalerite

Magnetic Biochar Obtained by Chemical Coprecipitation and Pyrolysis of Corn Cob Residues: Characterization and Methylene Blue Adsorption

Biochar is a carbonaceous and porous material with limited adsorption capacity, which increases by modifying its surface. Many of the biochars modified with magnetic nanoparticles reported previously were obtained in two steps: first, the biomass was pyrolyzed, and then the modification was performed. In this research, a biochar with Fe3O4 particles was obtained during the pyrolysis process. Corn cob residues were used to obtain the biochar (i.e., BCM) and the magnetic one (i.e., BCMFe). The BCMFe biochar was synthesized by a chemical coprecipitation technique prior to the pyrolysis process. The biochars obtained were characterized to determine their physicochemical, surface, and structural properties. The characterization revealed a porous surface with a 1013.52 m2/g area for BCM and 903.67 m2/g for BCMFe. The pores were uniformly distributed, as observed in SEM images. BCMFe showed Fe3O4 particles on the surface with a spherical shape and a uniform distribution. According to FTIR analysis, the functional groups formed on the surface were aliphatic and carbonyl functional groups. Ash content in the biochar was 4.0% in BCM and 8.0% in BCMFe; the difference corresponded to the presence of inorganic elements. The TGA showed that BCM lost 93.8 wt% while BCMFe was more thermally stable due to the inorganic species on the biochar surface, with a weight loss of 78.6%. Both biochars were tested as adsorbent materials for methylene blue. BCM and BCMFe obtained a maximum adsorption capacity (qm) of 23.17 mg/g and 39.66 mg/g, respectively. The obtained biochars are promising materials for the efficient removal of organic pollutants

Estado-Nación en México : independencia y revolución

Durante el año 2010 se vivió un conjunto de actividades encaminadas a celebrar dos acontecimientos que han marcado la vida de México: el inicio de las luchas armadas de Independencia en 1810 y de la Revolución mexicana en 1910. En este marco se desarrollaron acciones diversas. El interesado pudo encontrar películas en dibujos animados proyectadas en las cadenas de cine comercial, exposiciones fotográicas históricas o espectáculos masivos en espacios públicos por mencionar algunos