Evolution of genome space occupation in ferns: linking genome diversity and species richness

Background and Aims:The dynamics of genome evolution caused by whole genome duplications and other processes are hypothesized to shape the diversification of plants and thus contribute to the astonishing variation in species richness among the main lineages of land plants. Ferns, the second most species rich lineages of land plants are highly suitable to test this hypothesis because of several unique features that distinguish fern genomes from those of seed plants. In this study, we tested the hypothesis that genome diversity and disparity shape fern species diversity by recording several parameters related to genome size and chromosome number.Methods:We conducted de novo measurement of DNA C-values across the fern phylogeny to reconstruct the phylogenetic history of the genome space occupation in ferns by integrating genomic parameters such as genome size, chromosome number, and average DNA amount per chromosome into a time-scaled phylogenetic framework. Using phylogenetic generalized least square methods, we determined correlations between chromosome number and genome size, species diversity and evolutionary rates of their transformation.Key ResultsThe measurements of DNA C-values for 233 species more than doubled the taxon coverage from ca. 2.2% in previous studies to 5.3% of extant diversity. The dataset documented not only substantial differences in the accumulation of genomic diversity and disparity among the major lineages of ferns but also recovered support the predicted correlation between species diversity and the dynamics of genome evolution.Conclusions:Our results demonstrated substantial genome disparity among different groups in ferns and supported the prediction that alterations of reproductive modes alter trends of genome evolution. Finally, we recovered evidence for a close link between the dynamics of genome evolution and species diversity in ferns for the first time.Fil: Fujiwara, Tao. Xishuangbanna Tropical Botanical Garden; ChinaFil: Liu, Hongmei. Xishuangbanna Tropical Botanical Garden; ChinaFil: Meza Torres, Esteban Ismael. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Nordeste. Instituto de Botánica del Nordeste. Universidad Nacional del Nordeste. Facultad de Ciencias Agrarias. Instituto de Botánica del Nordeste; ArgentinaFil: Morero, Rita Ema. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Córdoba. Instituto Multidisciplinario de Biología Vegetal. Universidad Nacional de Córdoba. Facultad de Ciencias Exactas Físicas y Naturales. Instituto Multidisciplinario de Biología Vegetal; ArgentinaFil: Vega, Alvaro Jose. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Nordeste. Instituto de Botánica del Nordeste. Universidad Nacional del Nordeste. Facultad de Ciencias Agrarias. Instituto de Botánica del Nordeste; ArgentinaFil: Liang, Yuehwei. Xishuangbanna Tropical Botanical Garden; ChinaFil: Ebihara, Atsushi. National Museum Of Nature And Sciences, Tsukuba, Japan; JapónFil: Leitch, Ilia J.. Royal Botanic Gardens; Reino UnidoFil: Schneider, Harald. Xishuangbanna Tropical Botanical Garden; Chin

Design and evaluation of synthetic bacterial consortia for optimized phenanthrene degradation through the integration of genomics and shotgun proteomics

Two synthetic bacterial consortia (SC) composed of bacterial strains Sphingobium sp. (AM), Klebsiella aerogenes (B), Pseudomonas sp. (Bc-h and T), Burkholderia sp. (Bk) and Inquilinus limosus (Inq) isolated from a natural phenanthrene (PHN)-degrading consortium (CON) were developed and evaluated as an alternative approach to PHN biodegradation in bioremediation processes. A metabolic network showing the potential role of strains was reconstructed by in silico study of the six genomes and classification of dioxygenase enzymes using RHObase and AromaDeg databases. Network analysis suggested that AM and Bk were responsible for PHN initial attack, while Inq, B, T and Bc-h would degrade PHN metabolites. The predicted roles were further confirmed by physiological, RT-qPCR and metaproteomic assays. SC-1 with AM as the sole PHN degrader was the most efficient. The ecological roles inferred in this study can be applied to optimize the design of bacterial consortia and tackle the biodegradation of complex environmental pollutants.EEA RafaelaFil: Macchi, Marianela. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro de Investigación y Desarrollo en Fermentaciones Industriales. Universidad Nacional de La Plata. Centro de Investigación y Desarrollo en Fermentaciones Industriales; ArgentinaFil: Festa, Sabrina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro de Investigación y Desarrollo en Fermentaciones Industriales. Universidad Nacional de La Plata. Centro de Investigación y Desarrollo en Fermentaciones Industriales; ArgentinaFil: Nieto, Esteban. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro de Investigación y Desarrollo en Fermentaciones Industriales. Universidad Nacional de La Plata. Centro de Investigación y Desarrollo en Fermentaciones Industriales; ArgentinaFil: Irazoqui, Jose Matias. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Rafaela; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina.Fil: Vega-Vela, Nelson E. Pontificia Universidad Javeriana; Colombia. Universidad de Bogotá Jorge Tadeo Lozano; ColombiaFil: Junca, Howard. Microbiomas Foundation. Division Ecogenomics & Holobionts. RG Microbial Ecology: Metabolism, Genomics & Evolution; ColombiaFil: Valacco, María Pía. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. IQUIBICEN. Consejo Nacional de Investigaciones Científicas y Técnicas. IQUIBICEN; ArgentinaFil: Amadio, Ariel. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Rafaela; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina.Fil: Morelli, Irma S. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro de Investigación y Desarrollo en Fermentaciones Industriales. Universidad Nacional de La Plata. Centro de Investigación y Desarrollo en Fermentaciones Industriales; Argentina. Comisión de Investigaciones Científicas de la Provincia de Buenos Aires; ArgentinaFil: Coppotelli, Bibiana M. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro de Investigación y Desarrollo en Fermentaciones Industriales. Universidad Nacional de La Plata. Centro de Investigación y Desarrollo en Fermentaciones Industriales; Argentin

Glucose homeostasis changes and pancreatic β-cell proliferation after switching to cyclosporin in tacrolimus-induced diabetes mellitus

AbstractBackgroundSwitching to cyclosporin A may result in a reversion of tacrolimus-induced diabetes mellitus. However, mechanisms underlying such a reversion are still unknown.MethodsObese Zucker rats were used as a model for tacrolimus-induced diabetes mellitus. A cohort of 44 obese Zucker rats received tacrolimus for 11 days (0.3mg/kg/day) until diabetes development; then, (a) 22 rats were euthanized at day 12 and were used as a reference group (tacrolimus-day 12), and (b) 22 rats on tacrolimus were shifted to cyclosporin (2.5mg/kg/day) for 5 days (tacrolimus-cyclosporin). An additional cohort of 22 obese Zucker rats received the vehicle for 17 days and was used as a control group. All animals underwent an intraperitoneal glucose tolerance test at the end of the study.Resultsβ-Cell proliferation, apoptosis and Ins2 gene expression were evaluated. Compared to rats in tacrolimus-day 12 group, those in tacrolimus-cyclosporin group showed a significant improvement in blood glucose levels in all assessment points in intraperitoneal glucose tolerance test. Diabetes decreased from 100% in tacrolimus-day-12 group to 50% in tacrolimus-cyclosporin group. Compared to tacrolimus-day-12 group, rats in tacrolimus-cyclosporin group showed an increased β-cell proliferation, but such an increase was lower than in rats receiving the vehicle. Ins2 gene expressions in rats receiving tacrolimus-cyclosporin and rats receiving the vehicle were comparable.ConclusionAn early switch from tacrolimus to cyclosporin in tacrolimus-induced diabetes mellitus resulted in an increased β-cell proliferation and reversion of diabetes in 50% of cases

Solar Thermal Collector Output Temperature Prediction by Hybrid Intelligent Model for Smartgrid and Smartbuildings Applications and Optimization

Currently, there is great interest in reducing the consumption of fossil fuels (and other non-renewable energy sources) in order to preserve the environment; smart buildings are commonly proposed for this purpose as they are capable of producing their own energy and using it optimally. However, at times, solar energy is not able to supply the energy demand fully; it is mandatory to know the quantity of energy needed to optimize the system. This research focuses on the prediction of output temperature from a solar thermal collector. The aim is to measure solar thermal energy and optimize the energy system of a house (or building). The dataset used in this research has been taken from a real installation in a bio-climate house located on the Sotavento Experimental Wind Farm, in north-west Spain. A hybrid intelligent model has been developed by combining clustering and regression methods such as neural networks, polynomial regression, and support vector machines. The main findings show that, by dividing the dataset into small clusters on the basis of similarity in behavior, it is possible to create more accurate models. Moreover, combining different regression methods for each cluster provides better results than when a global model of the whole dataset is used. In temperature prediction, mean absolute error was lower than 4 ∘ C.info:eu-repo/semantics/publishedVersio

Genome-wide phenotypic RNAi screen in the Drosophila wing: Global parameters

We have screened a collection of UAS-RNAi lines targeting 10,920 Drosophila protein-coding genes for phenotypes in the adult wing. We identified 3653 genes (33%) whose knockdown causes either larval/pupal lethality or a mutant phenotype affecting the formation of a normal wing. The most frequent phenotypes consist of changes in wing size, vein differentiation, and patterning, defects in the wing margin and in the apposition of the dorsal and ventral wing surfaces. We also defined 16 functional categories encompassing the most relevant aspect of each protein function and assigned each Drosophila gene to one of these functional groups. This allowed us to identify which mutant phenotypes are enriched within each functional group. Finally, we used previously published gene expression datasets to determine which genes are or are not expressed in the wing disc. Integrating expression, phenotypic and molecular information offers considerable precision to identify the relevant genes affecting wing formation and the biological processes regulated by the

Determinación del riesgo de caries en niños menores de 5 años en escuelas del sector norte de Quito, Ecuador

Objective: Estimated the caries risk of children under 5 years of age in the urban area of the northern sector in Quito, Ecuador. Materials and methods: The sample consisted by 102 pairs; child and parents and / or representatives, who have been accepted a prior informed consent, they were subjected to the management of caries by risk assessment survey (CAMBRA) to determine the risk of presenting caries in their children. We were also done a clinical examination to assess the presence of caries and plaque. The data was compiled in an Excel table and were analyzed in SPSS program. Results: 60.8% of the minor participants belonging to the female gender. CAMBRA survey has a high-risk measure. Meanwhile, the clinical examination determined that the temporal teeth caries index was 4.62 with the presence of a plaque in 86% of the evaluated population. Conclusions: According to the survey, CAMBRA applied, the risk to the presentation of caries is high and is related to the rates of tooth decay and dental plaque detected in the same population. Objetivo: Estimar el riesgo de caries de los niños menores de 5 años de la zona urbana del sector norte de Quito, Ecuador. Materiales y métodos: La muestra quedó conformada por 102 pares; niño y padres y/o representantes, quienes previa autorización mediante consentimiento informado firmado por los padres y/o representante y asentimiento informado firmado por niño, fueron solicitados a llenar la encuesta Caries Management by Risk Assessment (CAMBRA) para determinar el riesgo de presentar caries en sus hijos. También fue hecho en examen clínico para avaliar la presencia de caries y placa Los datos fueron recopilados a una tabla de Excel y fueron sometidos a análisis estadísticos descriptivos. Resultados: 60,8% de los menores participantes pertenecieron al género femenino. El cuestionario CAMBRA permitió obtener la valoración de riesgo alto. Mientras, el examen clínico ejecutado permitió determinar que el índice de caries fue de 4,62 dientes temporales afectados con la presencia de placa en un 86% de la población evaluada. Conclusiones: Según la encuesta CAMBRA aplicada, el riesgo a presentar caries es alto y guarda gran relación con los índices de caries y placa dental detectados en la misma población.

Achievements of EU funded project BFIRST on BIPV technology

EU funded “Building-integrated fibre reinforced solar technology” (BFIRST) project (Grant Agreement number 296016) was launched in 2012 by a consortium of EU companies, research institutes and universities, led by Tecnalia. The project, which will end in early 2017, is focused on the design, development, fabrication and demonstration of a set of standardized multifunctional photovoltaic products for building integration using an innovative manufacturing solution based on glass fibre-reinforced composite materials. This novel encapsulation technology is the basis for a wide range of new BIPV (building-integrated photovoltaic) products with enhanced building integration possibilities. The resulting modules present advanced characteristics in terms of flexibility of design, adaptability to non-planar geometries, structural properties and lightweight, among others. They provide additional advantages related to cost reduction in transport, manipulation, assembly and installatio

Mutational screening of newly diagnosed multiple myeloma patients by deep targeted sequencing

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Risk factors for developing ventilator-associated lower respiratory tract infection in patients with severe COVID-19:a multinational, multicentre study, prospective, observational study

Around one-third of patients diagnosed with COVID-19 develop a severe illness that requires admission to the Intensive Care Unit (ICU). In clinical practice, clinicians have learned that patients admitted to the ICU due to severe COVID-19 frequently develop ventilator-associated lower respiratory tract infections (VA-LRTI). This study aims to describe the clinical characteristics, the factors associated with VA-LRTI, and its impact on clinical outcomes in patients with severe COVID-19. This was a multicentre, observational cohort study conducted in ten countries in Latin America and Europe. We included patients with confirmed rtPCR for SARS-CoV-2 requiring ICU admission and endotracheal intubation. Only patients with a microbiological and clinical diagnosis of VA-LRTI were included. Multivariate Logistic regression analyses and Random Forest were conducted to determine the risk factors for VA-LRTI and its clinical impact in patients with severe COVID-19. In our study cohort of 3287 patients, VA-LRTI was diagnosed in 28.8% [948/3287]. The cumulative incidence of ventilator-associated pneumonia (VAP) was 18.6% [610/3287], followed by ventilator-associated tracheobronchitis (VAT) 10.3% [338/3287]. A total of 1252 bacteria species were isolated. The most frequently isolated pathogens were Pseudomonas aeruginosa (21.2% [266/1252]), followed by Klebsiella pneumoniae (19.1% [239/1252]) and Staphylococcus aureus (15.5% [194/1,252]). The factors independently associated with the development of VA-LRTI were prolonged stay under invasive mechanical ventilation, AKI during ICU stay, and the number of comorbidities. Regarding the clinical impact of VA-LRTI, patients with VAP had an increased risk of hospital mortality (OR [95% CI] of 1.81 [1.40-2.34]), while VAT was not associated with increased hospital mortality (OR [95% CI] of 1.34 [0.98-1.83]). VA-LRTI, often with difficult-to-treat bacteria, is frequent in patients admitted to the ICU due to severe COVID-19 and is associated with worse clinical outcomes, including higher mortality. Identifying risk factors for VA-LRTI might allow the early patient diagnosis to improve clinical outcomes. Trial registration: This is a prospective observational study; therefore, no health care interventions were applied to participants, and trial registration is not applicable

Family History and Breast Cancer Hormone Receptor Status in a Spanish Cohort

Breast cancer is a heterogenous disease that impacts racial/ethnic groups differently. Differences in genetic composition, lifestyles, reproductive factors, or environmental exposures may contribute to the differential presentation of breast cancer among Hispanic women.A population-based study was conducted in the city of Santiago de Compostela, Spain. A total of 645 women diagnosed with operable invasive breast cancer between 1992 and 2005 participated in the study. Data on demographics, breast cancer risk factors, and clinico-pathological characteristics of the tumors were collected. Hormone receptor negative tumors were compared with hormone receptor postive tumors on their clinico-pathological characteristics as well as risk factor profiles.Among the 645 breast cancer patients, 78% were estrogen receptor-positive (ER+) or progesterone receptor-positive (PR+), and 22% were ER−&PR−. Women with a family history of breast cancer were more likely to have ER−&PR− tumors than women without a family history (Odds ratio, 1.43; 95% confidence interval, 0.91–2.26). This association was limited to cancers diagnosed before age 50 (Odds ratio, 2.79; 95% confidence interval, 1.34–5.81).An increased proportion of ER−&PR− breast cancer was observed among younger Spanish women with a family history of the disease