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https://www.readbyqxmd.com/read/29456874/a-novel-approach-to-data-collection-for-difficult-structures-data-management-for-large-numbers-of-crystals-with-the-blend-software
#1
Anastasia Mylona, Stephen Carr, Pierre Aller, Isabel Moraes, Richard Treisman, Gwyndaf Evans, James Foadi
The present article describes how to use the computer program BLEND to help assemble complete datasets for the solution of macromolecular structures, starting from partial or complete datasets, derived from data collection from multiple crystals. The program is demonstrated on more than two hundred X-ray diffraction datasets obtained from 50 crystals of a complex formed between the SRF transcription factor, its cognate DNA, and a peptide from the SRF cofactor MRTF-A. This structure is currently in the process of being fully solved...
August 4, 2017: Crystals
https://www.readbyqxmd.com/read/29456208/morbidity-and-mortality-of-hospitalized-hip-fractures-in-chronic-hemodialysis
#2
Georgios Vlachopanos, Theodoras Kassimatis, Anastasia Kokkona, Adamantia Zerva, Eirini Stavroulaki, Charilaos Zacharogiannis, Athanasios Agrafiotis
Abnormal bone architecture contributes to high incidence of hip fractures in chronichemodialysis (HD) patients. Their clinical epidemiology is incompletely described. We conducted a retrospective cohort study to assess the implications ofhospitalization with hip fracture in HD patients compared to the nonchronic kidney disease population. Thirty-three chronic HD patients admitted with hip fracture overfiveyears were age- and sex-matched on a 1:1 ratio with controls that had hip fracture and normal renal function...
January 2018: Saudi Journal of Kidney Diseases and Transplantation
https://www.readbyqxmd.com/read/29456043/colistin-alone-versus-colistin-plus-meropenem-for-treatment-of-severe-infections-caused-by-carbapenem-resistant-gram-negative-bacteria-an-open-label-randomised-controlled-trial
#3
Mical Paul, George L Daikos, Emanuele Durante-Mangoni, Dafna Yahav, Yehuda Carmeli, Yael Dishon Benattar, Anna Skiada, Roberto Andini, Noa Eliakim-Raz, Amir Nutman, Oren Zusman, Anastasia Antoniadou, Pia Clara Pafundi, Amos Adler, Yaakov Dickstein, Ioannis Pavleas, Rosa Zampino, Vered Daitch, Roni Bitterman, Hiba Zayyad, Fidi Koppel, Inbar Levi, Tanya Babich, Lena E Friberg, Johan W Mouton, Ursula Theuretzbacher, Leonard Leibovici
BACKGROUND: Colistin-carbapenem combinations are synergistic in vitro against carbapenem-resistant Gram-negative bacteria. We aimed to test whether combination therapy improves clinical outcomes for adults with infections caused by carbapenem-resistant or carbapenemase-producing Gram-negative bacteria. METHODS: A randomised controlled superiority trial was done in six hospitals in Israel, Greece, and Italy. We included adults with bacteraemia, ventilator-associated pneumonia, hospital-acquired pneumonia, or urosepsis caused by carbapenem-non-susceptible Gram-negative bacteria...
February 15, 2018: Lancet Infectious Diseases
https://www.readbyqxmd.com/read/29454515/quantitative-profiling-reveals-minor-changes-of-t-cell-receptor-repertoire-in-response-to-subunit-inactivated-influenza-vaccine
#4
Anastasiia L Sycheva, Mikhail V Pogorelyy, Ekaterina A Komech, Anastasia A Minervina, Ivan V Zvyagin, Dmitriy B Staroverov, Dmitriy M Chudakov, Yuri B Lebedev, Ilgar Z Mamedov
Vaccination against influenza is widely used to protect against seasonal flu epidemic although its effectiveness is debated. Here we performed deep quantitative T cell receptor repertoire profiling in peripheral blood of a healthy volunteer in response to trivalent subunit influenza vaccine. We did not observe significant rebuilding of peripheral blood T cell receptors composition in response to vaccination. However, we found several clonotypes in memory T cell fraction that were undetectable before the vaccination and had a maximum concentration at day 45 after vaccine administration...
February 15, 2018: Vaccine
https://www.readbyqxmd.com/read/29449332/inhibition-of-endothelial-notch1-signaling-attenuates-inflammation-by-reducing-cytokine-mediated-histone-acetylation-at-inflammatory-enhancers
#5
Lars la Cour Poulsen, Reidunn Jetne Edelmann, Stig Krüger, Rodrigo Diéguez-Hurtado, Akshay Shah, Tor Espen Stav-Noraas, Anastasia Renzi, Monika Szymanska, Junbai Wang, Manuel Ehling, Rui Benedito, Monika Kasprzycka, Espen Bækkevold, Olav Sundnes, Kim S Midwood, Helge Scott, Philippe Collas, Christian W Siebel, Ralf H Adams, Guttorm Haraldsen, Eirik Sundlisæter, Johanna Hol
OBJECTIVE: Endothelial upregulation of adhesion molecules serves to recruit leukocytes to inflammatory sites and appears to be promoted by NOTCH1; however, current models based on interactions between active NOTCH1 and NF-κB components cannot explain the transcriptional selectivity exerted by NOTCH1 in this context. APPROACH AND RESULTS: Observing that Cre/Lox-induced conditional mutations of endothelial Notch modulated inflammation in murine contact hypersensitivity, we found that IL (interleukin)-1β stimulation induced rapid recruitment of RELA to genomic sites occupied by NOTCH1-RBPJ and that NOTCH1 knockdown reduced H3K27 acetylation at a subset of NF-κB-directed inflammatory enhancers...
February 15, 2018: Arteriosclerosis, Thrombosis, and Vascular Biology
https://www.readbyqxmd.com/read/29448768/mobility-and-settling-rate-of-agglomerates-of-polydisperse-nanoparticles
#6
Anastasia Spyrogianni, Katerina S Karadima, Eirini Goudeli, Vlasis G Mavrantzas, Sotiris E Pratsinis
Agglomerate settling impacts nanotoxicology and nanomedicine as well as the stability of engineered nanofluids. Here, the mobility of nanostructured fractal-like SiO 2 agglomerates in water is investigated and their settling rate in infinitely dilute suspensions is calculated by a Brownian dynamics algorithm tracking the agglomerate translational and rotational motion. The corresponding friction matrices are obtained using the HYDRO++ algorithm [J. G. de la Torre, G. del Rio Echenique, and A. Ortega, J. Phys...
February 14, 2018: Journal of Chemical Physics
https://www.readbyqxmd.com/read/29447106/challenges-of-site-specific-selenocysteine-incorporation-into-proteins-by-escherichia-coli
#7
Xian Fu, Dieter Söll, Anastasia Sevostyanova
Selenocysteine (Sec), a rare genetically encoded amino acid with unusual chemical properties, is of great interest for protein engineering. Sec is synthesized on its cognate tRNA (tRNA Sec ) by the concerted action of several enzymes. While all other aminoacyl-tRNAs are delivered to the ribosome by the elongation factor Tu (EF-Tu), Sec-tRNA Sec requires a dedicated factor, SelB. Incorporation of Sec into protein requires recoding of the stop codon UGA aided by a specific mRNA structure, the SECIS element. This unusual biogenesis restricts the use of Sec in recombinant proteins, limiting our ability to study the properties of selenoproteins...
February 15, 2018: RNA Biology
https://www.readbyqxmd.com/read/29446724/inhibitors-of-er-aminopeptidase-1-and-2-from-design-to-clinical-application
#8
Dimitris Georgiadis, Anastasia Mpakali, Despoina Koumantou, Efstratios Stratikos
Endoplasmic Reticulum aminopeptidase 1 and 2 are two homologous enzymes that help generate peptide ligands for presentation by Major Histocompatibility Class I molecules. Their enzymatic activity influences the antigenic peptide repertoire and indirectly controls adaptive immune responses. Accumulating evidence suggests that these two enzymes are tractable targets for the regulation of immune responses with possible applications ranging from cancer immunotherapy to treating inflammatory autoimmune disease. Here, we review the state-of-the-art in the development of inhibitors of ERAP1 and ERAP2 as well as their potential and limitations for clinical applications...
February 13, 2018: Current Medicinal Chemistry
https://www.readbyqxmd.com/read/29445934/serum-surfactant-protein-levels-in-patients-admitted-to-the-hospital-with-acute-copd-exacerbation
#9
Andriana I Papaioannou, Elisavet Konstantelou, Anastasia Papaporfyriou, Konstantinos Bartziokas, Aris Spathis, Petros Bakakos, Stelios Loukides, Nikolaos Koulouris, Spyros Papiris, Konstantinos Kostikas
Surfactant proteins (SPs) have been studied in COPD patients as biomarkers of disease severity and as predictive factors of unfavorable outcomes. The aim of this exploratory study was to evaluate serum levels of SP-A, SP-B, SP-C, and SP-D in patients with COPD both during AECOPD and in stability and to test their possible associations with disease severity and with the development of new exacerbation events. 20 consecutive COPD patients hospitalized for AECOPD were included. Serum SP levels were measured on admission, at discharge, and on stability...
February 14, 2018: Lung
https://www.readbyqxmd.com/read/29443970/structural-and-evolutionary-insights-into-ribosomal-rna-methylation
#10
REVIEW
Petr V Sergiev, Nikolay A Aleksashin, Anastasia A Chugunova, Yury S Polikanov, Olga A Dontsova
Methylation of nucleotides in ribosomal RNAs (rRNAs) is a ubiquitous feature that occurs in all living organisms. Identification of all enzymes responsible for rRNA methylation, as well as mapping of all modified rRNA residues, is now complete for a number of model species, such as Escherichia coli and Saccharomyces cerevisiae. Recent high-resolution structures of bacterial ribosomes provided the first direct visualization of methylated nucleotides. The structures of ribosomes from various organisms and organelles have also lately become available, enabling comparative structure-based analysis of rRNA methylation sites in various taxonomic groups...
February 14, 2018: Nature Chemical Biology
https://www.readbyqxmd.com/read/29441686/miniaturizing-em-sample-preparation-opportunities-challenges-and-visual-proteomics
#11
REVIEW
Stefan A Arnold, Shirley A Müller, Claudio Schmidli, Anastasia Syntychaki, Luca Rima, Mohamed Chami, H Stahlberg, Kenneth N Goldie, T Braun
This review compares and discusses conventional versus miniaturized specimen preparation methods for transmission electron microscopy (EM). The progress brought by direct electron detector cameras, software developments and automation have transformed transmission cryo-electron microscopy (cryo-EM) and made it an invaluable high-resolution structural analysis tool. In contrast, EM specimen preparation has seen very little progress in the last decades and is now one of the main bottlenecks in cryo-EM. Here, we discuss the challenges faced by specimen preparation for single particle EM, highlight current developments, and show the opportunities resulting from the advanced miniaturized and microfluidic sample grid preparation methods described, such as visual proteomics and time-resolved cryo-EM studies...
February 14, 2018: Proteomics
https://www.readbyqxmd.com/read/29441650/incidence-prevalence-and-clinical-correlates-of-antidepressant-emergent-mania-in-bipolar-depression-a-systematic-review-and-meta-analysis
#12
REVIEW
Michele Fornaro, Annalisa Anastasia, Stefano Novello, Andrea Fusco, Marco Solmi, Francesco Monaco, Nicola Veronese, Domenico De Berardis, Andrea de Bartolomeis
BACKGROUND: Treatment-emergent mania (TEM) represents a common phenomenon inconsistently reported across primary studies, warranting further assessment. METHODS: A systematic review and meta-analysis following the Preferred Reporting Items for Systematic Review and Meta-Analysis (PRISMA) and Meta-Analysis of Observational Studies in Epidemiology (MOOSE) guidelines were conducted. Major electronic databases were searched from inception to May 2017 to assess the incidence and prevalence rates and clinical features associated with manic switch among bipolar depressed patients receiving antidepressants, using meta-regression and subgroup analysis...
February 14, 2018: Bipolar Disorders
https://www.readbyqxmd.com/read/29440732/matrimid-juc-62-and-matrimid-pcn-250-mixed-matrix-membranes-displaying-light-responsive-gas-separation-and-beneficial-ageing-characteristics-for-co-2-n-2-separation
#13
Nicholaus Prasetya, Anastasia A Teck, Bradley P Ladewig
The performance of two generation-3 light-responsive metal-organic framework (MOF), namely JUC-62 and PCN-250, was investigated in a mixed matrix membrane (MMM) form. Both of them were incorporated inside the matrimid as the polymer matrix. Using our custom-designed membrane testing cell, it was observed that the MMMs showed up to 9% difference in CO2permeability between its pristine and UV-irradiated condition. This shows that the light-responsive ability of the light-responsive MOFs could still be maintained...
February 13, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29440382/germ-layer-commitment-and-axis-formation-in-sea-anemone-embryonic-cell-aggregates
#14
Anastasia Kirillova, Grigory Genikhovich, Ekaterina Pukhlyakova, Adrien Demilly, Yulia Kraus, Ulrich Technau
Robust morphogenetic events are pivotal for animal embryogenesis. However, comparison of the modes of development of different members of a phylum suggests that the spectrum of developmental trajectories accessible for a species might be far broader than can be concluded from the observation of normal development. Here, by using a combination of microsurgery and transgenic reporter gene expression, we show that, facing a new developmental context, the aggregates of dissociated embryonic cells of the sea anemone Nematostella vectensis take an alternative developmental trajectory...
February 9, 2018: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29439414/an-iot-based-gamified-approach-for-reducing-occupants-energy-wastage-in-public-buildings
#15
Thanasis G Papaioannou, Nikos Dimitriou, Kostas Vasilakis, Anthony Schoofs, Manolis Nikiforakis, Fabian Pursche, Nikolay Deliyski, Amr Taha, Dimosthenis Kotsopoulos, Cleopatra Bardaki, Sarantis Kotsilitis, Anastasia Garbi
Conserving energy amenable to the activities of occupants in public buildings is a particularly challenging objective that includes associating energy consumption to particular individuals and providing them with incentives to alter their behavior. This paper describes a gamification framework that aims to facilitate achieving greater energy conservation in public buildings. The framework leverages IoT-enabled low-cost devices, to improve energy disaggregation mechanisms that provide energy use and-consequently-wastage information at the device, area and end-user level...
February 10, 2018: Sensors
https://www.readbyqxmd.com/read/29439000/endo-epicardial-catheter-ablation-of-atrial-fibrillation-feasibility-outcome-and-insights-into-arrhythmia-mechanisms
#16
Christopher Piorkowski, Mads Kronborg, Jerome Hourdain, Judith Piorkowski, Bettina Kirstein, Sebastian Neudeck, Simon Wechselberger, Ellen Päßler, Anastasia Löwen, Ali El-Armouche, Julia Mayer, Stefan Ulbrich, Liying Pu, Utz Richter, Thomas Gaspar, Yan Huo
BACKGROUND: Until today, catheter interventional mapping and ablation of atrial fibrillation (AF) has been limited to the right and left atrial endocardium. We report feasibility, electrophysiological findings, and clinical outcome using a combined endo-/epicardial catheter approach for mapping and ablation of AF. METHODS AND RESULTS: Fifty-nine patients with permanence of pulmonary vein isolation and further symptomatic recurrences of paroxysmal AF, persistent AF, or atrial tachycardia underwent reablation using biatrial endo-/epicardial mapping and ablation...
February 2018: Circulation. Arrhythmia and Electrophysiology
https://www.readbyqxmd.com/read/29435218/giant-colonic-diverticulum-a-rare-cause-of-acute-abdomen
#17
Athanasios Syllaios, Dimitra Daskalopoulou, Nikolaos Bourganos, Anastasia Papakonstantinou, Evangelia Triantafyllou, Antonios Koutras, Christos Georgiou
Giant colonic diverticulum (GCD), defined as diverticulum larger than 4 cm, is a rare entity. It is generally a manifestation of colonic diverticular disease and can have dramatic complications such as perforation, abscess, volvulus, infarction and adenocarcinoma. This report documents the case of a 63-year-old man coming to the Emergency Department with acute abdomen due to a perforation of a GCD. In the plain abdominal X-ray the 'Balloon-sign' was revealed, computed tomography scan and Hartmann's procedure were performed...
February 2018: Journal of Surgical Case Reports
https://www.readbyqxmd.com/read/29432571/comparison-of-partially-and-fully-chemically-modified-sirna-in-conjugate-mediated-delivery-in-vivo
#18
Matthew R Hassler, Anton A Turanov, Julia F Alterman, Reka A Haraszti, Andrew H Coles, Maire F Osborn, Dimas Echeverria, Mehran Nikan, William E Salomon, Loïc Roux, Bruno M D C Godinho, Sarah M Davis, David V Morrissey, Phillip D Zamore, S Ananth Karumanchi, Melissa J Moore, Neil Aronin, Anastasia Khvorova
Small interfering RNA (siRNA)-based drugs require chemical modifications or formulation to promote stability, minimize innate immunity, and enable delivery to target tissues. Partially modified siRNAs (up to 70% of the nucleotides) provide significant stabilization in vitro and are commercially available; thus are commonly used to evaluate efficacy of bio-conjugates for in vivo delivery. In contrast, most clinically-advanced non-formulated compounds, using conjugation as a delivery strategy, are fully chemically modified (100% of nucleotides)...
February 8, 2018: Nucleic Acids Research
https://www.readbyqxmd.com/read/29432491/clonal-chromosomal-and-genomic-instability-during-human-multipotent-mesenchymal-stromal-cells-long-term-culture
#19
Victoria Nikitina, Tatiana Astrelina, Vladimir Nugis, Aleksandr Ostashkin, Tatiana Karaseva, Ekaterina Dobrovolskaya, Dariya Usupzhanova, Yulia Suchkova, Elena Lomonosova, Sergey Rodin, Vitaliy Brunchukov, Stanislav Lauk-Dubitskiy, Valentin Brumberg, Anastasia Machova, Irina Kobzeva, Andrey Bushmanov, Aleksandr Samoilov
BACKGROUND AIMS: Spontaneous mutagenesis often leads to appearance of genetic changes in cells. Although human multipotent mesenchymal stromal cells (hMSC) are considered as genetically stable, there is a risk of genomic and structural chromosome instability and, therefore, side effects of cell therapy associated with long-term effects. In this study, the karyotype, genetic variability and clone formation analyses have been carried out in the long-term culture MSC from human gingival mucosa...
2018: PloS One
https://www.readbyqxmd.com/read/29431526/the-potential-role-of-statins-in-treating-liver-disease
#20
Konstantinos P Imprialos, Konstantinos Stavropoulos, Michael Doumas, Anastasia Skalkou, Ioanna Zografou, Vasilios G Athyros
Statins are commonly use for the management of dyslipidemia, worldwide. Various studies have demonstrated that statins offer significant reduction in the risk of cardiovascular morbidity and mortality. However, this class of drugs has been implicated in potential liver toxicity, thus has been considered as a "forbidden-drug" in patients with increased liver enzymes. Areas covered: Studies have shown that statins might offer clinical benefits in the setting of viral hepatitis, progression of cirrhosis, and hepatocellular carcinoma...
February 12, 2018: Expert Review of Gastroenterology & Hepatology
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