Escherichia coli EHEC Germany outbreak preliminary functional annotation using BG7 system

We have annotated the European outbreak E. coli EHEC genome sequenced by BGI (6-2-2011) and assembled with MIRA by Nick Loman (6-2-2011 ). Our system BG7, Bacterial Genome annotation of Era7 Bioinformatics, predicts ORFs and annotates them based on fragments of similarity with Uniprot proteins. We have predicted 6327 genes, 6156 encoding proteins y 171 corresponding to ribosomal and tRNA. Based on the preliminary results of our semi-automated method of annotation we have selected some predicted proteins with potential implications in pathogenicity and virulence.
There are 33 predicted genes annotated as toxins and we have found three putative hemolysins: Hemolysin E, a putative hemolysin expression modulating protein and a channel protein, hemolysin III family. We have found 31 predicted genes that could be related to specific antibiotic resistance: beta-lactamic, aminoglycoside, macrolide, polymyxin, tetracycline, fosfomycin and deoxycholate, novobiocin, chloramphenicol, bicyclomycin, norfloxacin and enoxacin and 6-mercaptopurine. This strain is rich in adhesion, secretion systems, pathogenicity and virulence related proteins. It seems to have a restriction-modification system, many proteins involved in Fe transport and utilization (siderophores as aerobactin and enterobactin), lysozyme, one inhibitor of pancreatic serine proteases, proteins involved in anaerobic respiration, antimicrobial peptides, and proteins involved in quorum sensing and biofilm formation that could confer competitive advantage to this strain

Quantitative phylogenomic evidence reveals a spatially structured SARS-CoV-2 diversity

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is an emergent RNA virus that spread around the planet in about 4 months. The consequences of this rapid dispersion are under investigation. In this work, we analyzed thousands of genomes and protein sequences from Africa, America, Asia, Europe, and Oceania. We provide statistically significant evidence that SARS-CoV-2 phylogeny is spatially structured. Remarkably, the virus phylogeographic patterns were correlated with ancestral amino acidic substitutions, suggesting that such mutations emerged along colonization events. We hypothesize that geographic structuring is the result of founder effects occurring as a consequence of, and local evolution occurring after, long-distance dispersion. Based on previous studies, the possibility that this could significantly affect the virus biology is not remote.Fil: Jones, Leandro Roberto. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de la Patagonia "San Juan Bosco". Facultad de Ciencias Naturales y Ciencias de la Salud - Sede Trelew. Laboratorio de Virología y Genética Molecular; ArgentinaFil: Manrique, Julieta Marina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de la Patagonia "San Juan Bosco". Facultad de Ciencias Naturales y Ciencias de la Salud - Sede Trelew. Laboratorio de Virología y Genética Molecular; Argentin

Акне як прояв дисбіозу кишечника

У больных угревой болезнью степень тяжести ее проявлений значительно увеличивается при наличии кишечных синдромов (раздраженного кишечника, маль-абсорбции). In patients with acne the degree of severity of acne symptoms significantly increases in the present of the bowel syndromes (irritable bowel syndrome, malabsorption)

La industria textil de Pradoluengo en perspectiva histórica

La industria textil de Pradoluengo ha sido una parte fundamental del desarrollo, tanto de este pequeño municipio burgalés, como del resto de la península desde el siglo XVI hasta hoy en día. El hecho de no presentar un escenario favorable para la agricultura o la ganadería provocó que los habitantes de la Villa tuvieran que dedicarse a otro tipo de tareas como es la textil, forjando durante quinientos años un fenómeno de estudio que, hoy en día, la herencia derivada de esa actividad podemos considerarla patrimonio. El objetivo de este trabajo es analizar las distintas etapas que atravesó esta industria, sus factores de éxito, así como aquellos que impidieron que se modernizara al nivel de otras industrias textiles como la catalana. Además, detallaremos las compañías que surgieron de tal industria y el patrimonio mueble e inmueble que se conserva animando a la conservación y puesta en valor del municipio y su actividad predominanteGrado en Administración y Dirección de Empresa

Estudio correlacional entre el bienestar psicológico, subjetivo y social, y el fatalismo, el trauma y las cogniciones irracionales postraumáticas, en personas adultas, desplazadas por la violencia sociopolítica, radicadas en la ciudad de Barranquilla.

Tesis (Psicóloga)La presente investigación ha pretendido correlacionar el bienestar psicológico, subjetivo y social, con el fatalismo, trauma y cogniciones irracionales postraumáticas, en personas adultas desplazadas por la violencia sociopolítica, radicadas en la ciudad de Barranquilla, Colombia. En lo referente a las variables de bienestar, se aplicaron las adaptaciones al español (Díaz et al., 2006) de las escalas de: Bienestar Psicológico de Ryff, Bienestar Subjetivo de Diener, Ítem Único de Satisfacción con la Vida de Cantril, Inventario de Afecto Positivo y Negativo (PANAS) de Watson, Clark y Tellegen (1988), y Bienestar Social de Keyes, a 200 adultos en situación de desplazamiento. Asimismo, se les aplicó las escalas de Fatalismo de Blanco y Díaz (2007), la Escala de Trauma de Davidson (1996) y el Inventario de Cogniciones Postraumáticas de Foa et al (1999). Los resultados indican que si bien las personas víctimas del desplazamiento forzado, presentan innegables síntomas de trauma con un matiz psicosocial, también se encuentra en ellos elementos asociados a la salud mental positiva, de los cuales sirven como indicadores, las escalas de bienestar.Universidad del Norte. Programa de Psicologí

Phylogenetic analysis of Ostreococcus virus sequences from the Patagonian Coast

A phylogenetic analysis of new Ostreococcus virus (OV) sequences from the Patagonian Coast, Argentina, and homologous sequences from public databases was performed. This analysis showed that the Patagonian sequences represented a divergent viral clade and that the rest of OV sequences analyzed here were clustered into six additional phylogenetic groups. Analyses of 18S gene libraries supported a close relationship of the Patagonian Ostreococcus host with clade A sequences described elsewhere, corroborating previous studies indicating that clade A strains are ubiquitous. Besides the Patagonian OV sequences, several phylogenetic groupings were linked to particular geographic locations, suggesting a role for allopatric cladogenesis in viral diversification. However, and in agreement with previous observations, other viral lineages included sequences with diverse geographic origins. These findings, together with analyses of ancestral trait trajectories performed here, are consistent with an evolutionary dynamics in which geographical isolation has a role in OV diversification but can be followed by rapid dispersion to remote places.Fil: Manrique, Julieta Marina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Fundación Playa Unión. Estación de Fotobiología Playa Unión; ArgentinaFil: Calvo, Andrea Yamila. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Fundación Playa Unión. Estación de Fotobiología Playa Unión; ArgentinaFil: Jones, Leandro Roberto. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Fundación Playa Unión. Estación de Fotobiología Playa Unión; Argentin

An optimized DNA extraction protocol for benthic Didymosphenia geminata

Didymosphenia geminata mats display few cells in relation to extracellular material and contain polysaccharides and heavy metals that interfere with molecular studies. We describe an optimized DNA extraction protocol that help to overcome these difficulties. Our protocol outperformed five previously described DNA extraction techniques.Fil: Uyua, Noelia Mariel. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de la Patagonia "San Juan Bosco". Facultad de Ciencias Naturales - Sede Trelew; ArgentinaFil: Manrique, Julieta Marina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de la Patagonia "San Juan Bosco". Facultad de Ciencias Naturales - Sede Trelew; ArgentinaFil: Jones, Leandro Roberto. Universidad Nacional de la Patagonia "San Juan Bosco". Facultad de Ciencias Naturales - Sede Trelew; Argentin

Implementación de un sistema de gestión de la energía en la logística de combustibles

El conocimiento y la información sobre el límite de los recursos energéticos y las consecuencias negativas sobre el medio ambiente del uso abusivo e indiscriminado de la energía, han dado lugar a una profunda inquietud en el seno de la sociedad, poniendo en evidencia la necesidad de consumir de forma sostenible. En este proyecto se pretende estudiar la mejora de la gestión de la energía de CLH mediante la implantación del sistema de gestión de la energía ISO 5001, con el objetivo de reducir costes y mejorar el desempeño energético. Para ello se pretende realizar la planificación energética que exige la norma. Consiste en un análisis de situación por el que se obtiene un conocimiento de las principales fuentes de energía de la compañía, el funcionamiento de sus instalaciones de almacenamiento y oleoductos y sus consumos energéticos. En definitiva, conocer dónde, cómo y para qué se utiliza la energía consumida en la compañía logística de hidrocarburos. La planificación energética abarca la toma de datos de las instalaciones de almacenamiento, iluminación, sistemas de bombeo y consumo en los oleoductos, el análisis de los mismos mediante indicadores de desempeño energético y la elaboración de recomendaciones de mejoras bajo criterios de eficiencia energética y medioambiental de sus instalaciones consumidoras.The knowledge and information about the limit of energy resources and the negative consequences on the environment caused by the abusive and indiscriminate use of energy, have led to a deep concern within society, highlighting the need to consume sustainably. This project aims to study the improvement of energy management through the implementation of CLH energy management system ISO 50001, in order to reduce costs and improve energy performance. To get this objective it is needed to develop the energy planning required by the standard. It consists of a situation analysis to obtain knowledge of the main energy sources of the company, the operation of its storage facilities, pipelines and energy consumption. In conclusion, to know where, how and why is energy consumed in the transport oil company. Energy planning includes extracting data from storage facilities, lighting, pumping systems and consumer pipelines, analyzing the energy performance indicators and making recommendations for improvements based on energy and environmental efficiency criteria of their consumer installations.Ingeniería Industria

ExtraTrain: a database of Extragenic regions and Transcriptional information in prokaryotic organisms

BACKGROUND: Transcriptional regulation processes are the principal mechanisms of adaptation in prokaryotes. In these processes, the regulatory proteins and the regulatory DNA signals located in extragenic regions are the key elements involved. As all extragenic spaces are putative regulatory regions, ExtraTrain covers all extragenic regions of available genomes and regulatory proteins from bacteria and archaea included in the UniProt database. DESCRIPTION: ExtraTrain provides integrated and easily manageable information for 679816 extragenic regions and for the genes delimiting each of them. In addition ExtraTrain supplies a tool to explore extragenic regions, named Palinsight, oriented to detect and search palindromic patterns. This interactive visual tool is totally integrated in the database, allowing the search for regulatory signals in user defined sets of extragenic regions. The 26046 regulatory proteins included in ExtraTrain belong to the families AraC/XylS, ArsR, AsnC, Cold shock domain, CRP-FNR, DeoR, GntR, IclR, LacI, LuxR, LysR, MarR, MerR, NtrC/Fis, OmpR and TetR. The database follows the InterPro criteria to define these families. The information about regulators includes manually curated sets of references specifically associated to regulator entries. In order to achieve a sustainable and maintainable knowledge database ExtraTrain is a platform open to the contribution of knowledge by the scientific community providing a system for the incorporation of textual knowledge. CONCLUSION: ExtraTrain is a new database for exploring Extragenic regions and Transcriptional information in bacteria and archaea. ExtraTrain database is available at

A systems biology approach to the characterization of stress response in Dermacentor reticulatus tick unfed larvae

[Background]: Dermacentor reticulatus (Fabricius, 1794) is distributed in Europe and Asia where it infests and transmits disease-causing pathogens to humans, pets and other domestic and wild animals. However, despite its role as a vector of emerging or re-emerging diseases, very little information is available on the genome, transcriptome and proteome of D. reticulatus. Tick larvae are the first developmental stage to infest hosts, acquire infection and transmit pathogens that are transovarially transmitted and are exposed to extremely stressing conditions. In this study, we used a systems biology approach to get an insight into the mechanisms active in D. reticulatus unfed larvae, with special emphasis on stress response. [Principal Findings]: The results support the use of paired end RNA sequencing and proteomics informed by transcriptomics (PIT) for the analysis of transcriptomics and proteomics data, particularly for organisms such as D. reticulatus with little sequence information available. The results showed that metabolic and cellular processes involved in protein synthesis were the most active in D. reticulatus unfed larvae, suggesting that ticks are very active during this life stage. The stress response was activated in D. reticulatus unfed larvae and a Rickettsia sp. similar to R. raoultii was identified in these ticks. [Significance]: The activation of stress responses in D. reticulatus unfed larvae likely counteracts the negative effect of temperature and other stress conditions such as Rickettsia infection and favors tick adaptation to environmental conditions to increase tick survival. These results show mechanisms that have evolved in D. reticulatus ticks to survive under stress conditions and suggest that these mechanisms are conserved across hard tick species. Targeting some of these proteins by vaccination may increase tick susceptibility to natural stress conditions, which in turn reduce tick survival and reproduction, thus reducing tick populations and vector capacity for tick-borne pathogens.This research was supported by grants BFU2011-23896 and the EU FP7 ANTIGONE project number 278976. M. Popara is an Early Stage Researcher supported by the POSTICK ITN (Post-graduate training network for capacity building to control ticks and tick-borne diseases) within the FP7- PEOPLE – ITN programme (EU Grant No. 238511). N. Ayllón and R.C. Galindo were funded by MEC, Spain.Peer Reviewe