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https://www.readbyqxmd.com/read/28830110/elucidating-transmission-patterns-from-internet-reports-ebola-and-middle-east-respiratory-syndrome-as-case-studies
#1
Gerardo Chowell, Julie M Cleaton, Cecile Viboud
The paucity of traditional epidemiological data during epidemic emergencies calls for alternative data streams to characterize the key features of an outbreak, including the nature of risky exposures, the reproduction number, and transmission heterogeneities. We illustrate the potential of Internet data streams to improve preparedness and response in outbreak situations by drawing from recent work on the 2014-2015 Ebola epidemic in West Africa and the 2015 Middle East respiratory syndrome (MERS) outbreak in South Korea...
December 1, 2016: Journal of Infectious Diseases
https://www.readbyqxmd.com/read/28829014/saonia-flava-gen-nov-sp-nov-a-marine-bacterium-of-the-family-flavobacteriaceae-isolated-from-coastal-seawater
#2
Sonja K Fagervold, Laurent Intertaglia, Nicole Batailler, Joana Bondoso, Philippe Lebaron
A Gram-stain-negative, aerobic, yellow-pigmented, straight rod-shaped bacterium, strain MOLA117T, was isolated from a coastal water sample from the north-western Mediterranean Sea, near Banyuls-sur-Mer, France. On the basis of phylogenetic analysis of the 16S rRNA gene sequence, strain MOLA117T was placed within the family Flavobacteriaceae, but showed less than 93 % 16S rRNA gene sequence similarity to other recognized species within the family. The most closely related genera included Arenibacter, Cellulophaga, Maribacter and Zobellia...
August 22, 2017: International Journal of Systematic and Evolutionary Microbiology
https://www.readbyqxmd.com/read/28828491/venous-thrombosis-and-cancer-what-would-dr-trousseau-teach-today
#3
Geno Merli, Howard Weitz
No abstract text is available yet for this article.
August 22, 2017: Annals of Internal Medicine
https://www.readbyqxmd.com/read/28827826/antimicrobial-activity-of-bovine-nk-lysin-derived-peptides-on-bovine-respiratory-pathogen-histophilus-somni
#4
Rohana P Dassanayake, Shollie M Falkenberg, Robert E Briggs, Fred M Tatum, Randy E Sacco
Bovine NK-lysins, which are functionally and structurally similar to human granulysin and porcine NK-lysin, are predominantly found in the granules of cytotoxic T-lymphocytes and NK-cells. Although antimicrobial activity of bovine NK-lysin has been assessed for several bacterial pathogens, not all the important bacterial pathogens that are involved in the bovine respiratory disease complex have been studied. Therefore the objective of the present study was to evaluate the antimicrobial activity of bovine NK-lysin-derived peptides on bovine respiratory pathogen Histophilus somni...
2017: PloS One
https://www.readbyqxmd.com/read/28827189/prediction-of-antibody-structural-epitopes-via-random-peptide-library-screening-and-next-generation-sequencing
#5
Kelly N Ibsen, Patrick S Daugherty
Next generation sequencing (NGS) is widely applied in immunological research, but has yet to become common in antibody epitope mapping. A method utilizing a 12-mer random peptide library expressed in bacteria coupled with magnetic-based cell sorting and NGS correctly identified >75% of epitope residues on the antigens of two monoclonal antibodies (trastuzumab and bevacizumab). PepSurf, a web-based computational method designed for structural epitope mapping was utilized to compare peptides in libraries enriched for monoclonal antibody (mAb) binders to antigen surfaces (HER2 and VEGF-A)...
August 18, 2017: Journal of Immunological Methods
https://www.readbyqxmd.com/read/28826780/towards-a-peptide-based-vaccine-against-shigella-sonnei-a-subtractive-reverse-vaccinology-based-approach
#6
Shehneela Baseer, Sajjad Ahmad, Kara E Ranaghan, Syed Sikander Azam
Shigella sonnei is one of the major causes of shigellosis in technically advanced countries and reports of its unprecedented increase are published from the Middle East, Latin America, and Asia. The pathogen exhibits resistance against first and second line antibiotics which highlights the need for the development of an effective broad-spectrum vaccine. A computational based approach comprising subtractive reverse vaccinology was used for the identification of potential peptide-based vaccine candidates in the proteome of S...
August 18, 2017: Biologicals: Journal of the International Association of Biological Standardization
https://www.readbyqxmd.com/read/28826284/middle-east-respiratory-syndrome-coronavirus-five-years-later
#7
Ali A Rabaan
In the past five years, there have been 1,936 laboratory-confirmed cases of Middle East Respiratory Syndrome coronavirus (MERS-CoV) in 27 countries, with a mortality rate of 35.6%. Most cases have arisen in the Middle East, particularly the Kingdom of Saudi Arabia, however there was a large hospital-associated outbreak in the Republic of Korea in 2015. Exposure to dromedary camels has been recognized by the World Health Organization (WHO) as a risk factor in primary cases, but the exact mechanisms of transmission are not clear...
August 21, 2017: Expert Review of Respiratory Medicine
https://www.readbyqxmd.com/read/28826215/the-composition-of-the-mobile-phase-affects-the-dynamic-chiral-recognition-of-drug-molecules-by-the-chiral-stationary-phase
#8
Binwu Zhao, Priyanka A Oroskar, Xiaoyu Wang, David House, Anil Oroskar, Asha Oroskar, Cynthia J Jameson, Sohail Murad
More than half of all pharmaceuticals are chiral compounds. Although the enantiomers of chiral compounds have the same chemical structure, they can exhibit marked differences in physiological activity; therefore, it is important to remove the undesirable enantiomer. Chromatographic separation of chiral enantiomers is one of the best available methods to get enantio-pure substances, but the optimization of the experimental conditions can be very time-consuming. One of the most widely used chiral stationary phases, amylose tris-(3,5-dimethylphenyl carbamate) (ADMPC), has been extensively investigated using both experimental and computational methods; however, the dynamic nature of the interaction between enantiomers and ADMPC, as well as the solvent effects on the ADMPC-enantiomer interaction, are currently absent from models of the chiral recognition mechanism...
August 21, 2017: Langmuir: the ACS Journal of Surfaces and Colloids
https://www.readbyqxmd.com/read/28824658/de-novo-assembly-of-complete-chloroplast-genomes-from-non-model-species-based-on-a-k-mer-frequency-based-selection-of-chloroplast-reads-from-total-dna-sequences
#9
Shairul Izan, Danny Esselink, Richard G F Visser, Marinus J M Smulders, Theo Borm
Whole Genome Shotgun (WGS) sequences of plant species often contain an abundance of reads that are derived from the chloroplast genome. Up to now these reads have generally been identified and assembled into chloroplast genomes based on homology to chloroplasts from related species. This re-sequencing approach may select against structural differences between the genomes especially in non-model species for which no close relatives have been sequenced before. The alternative approach is to de novo assemble the chloroplast genome from total genomic DNA sequences...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28823472/a-mutation-directs-the-structural-switch-of-dna-binding-proteins-under-starvation-to-a-ferritin-like-protein-cage
#10
Sunanda Margrett Williams, Anu Vijayakumari Chandran, Sunita Prakash, Mamannamana Vijayan, Dipankar Chatterji
Proteins of the ferritin family are ubiquitous in living organisms. With their spherical cage-like structures they are the iron storehouses in cells. Subfamilies of ferritins include 24-meric ferritins and bacterioferritins (maxiferritins), and 12-meric Dps (miniferritins). Dps safeguards DNA by direct binding, affording physical protection and safeguards from free radical-mediated damage by sequestering iron in its core. The maxiferritins can oxidize and store iron but cannot bind DNA. Here we show that a mutation at a critical interface in Dps alters its assembly from the canonical 12-mer to a ferritin-like 24-mer under crystallization...
August 2, 2017: Structure
https://www.readbyqxmd.com/read/28823053/identification-of-a-ron-tyrosine-kinase-receptor-binding-peptide-using-phage-display-technique-and-computational-modeling-of-its-binding-mode
#11
Omid Zarei, Silvia Benvenuti, Fulya Ustun-Alkan, Maryam Hamzeh-Mivehroud, Siavoush Dastmalchi
RON (Recepteur d'Origine Nantais) tyrosine kinase receptor is a promising target for therapeutic intervention in cancer therapy. The aim of this work was identification of RON-binding peptides using phage display and computational modeling their mode of binding. A 12-mer peptide phage library was utilized to perform biopanning against RON. The RON-binding ability of the selected peptide-displaying phage and their possible binding sites were examined by ELISA. Binding modes and affinities were also predicted by docking and molecular dynamics (MD) simulation...
August 19, 2017: Journal of Molecular Modeling
https://www.readbyqxmd.com/read/28821364/serologic-responses-of-42-mers-coronavirus-infected-patients-according-to-the-disease-severity
#12
Jae-Hoon Ko, Marcel A Müller, Hyeri Seok, Ga Eun Park, Ji Yeon Lee, Sun Young Cho, Young Eun Ha, Jin Yang Baek, So Hyun Kim, Ji-Man Kang, Yae-Jean Kim, Ik Joon Jo, Chi Ryang Chung, Myong-Joon Hahn, Christian Drosten, Cheol-In Kang, Doo Ryeon Chung, Jae-Hoon Song, Eun-Suk Kang, Kyong Ran Peck
We evaluated serologic response of 42 Middle East respiratory syndrome coronavirus (MERS-CoV)-infected patients according to 4 severity groups: asymptomatic infection (Group 0), symptomatic infection without pneumonia (Group 1), pneumonia without respiratory failure (Group 2), and pneumonia progressing to respiratory failure (Group 3). None of the Group 0 patients showed seroconversion, while the seroconversion rate gradually increased with increasing disease severity (0.0%, 60.0%, 93.8%, and 100% in Group 0, 1, 2, 3, respectively; P = 0...
July 14, 2017: Diagnostic Microbiology and Infectious Disease
https://www.readbyqxmd.com/read/28819548/a-random-forest-classifier-for-detecting-rare-variants-in-ngs-data-from-viral-populations
#13
Raunaq Malhotra, Manjari Jha, Mary Poss, Raj Acharya
We propose a random forest classifier for detecting rare variants from sequencing errors in Next Generation Sequencing (NGS) data from viral populations. The method utilizes counts of varying length of k-mers from the reads of a viral population to train a Random forest classifier, called MultiRes, that classifies k-mers as erroneous or rare variants. Our algorithm is rooted in concepts from signal processing and uses a frame-based representation of k-mers. Frames are sets of non-orthogonal basis functions that were traditionally used in signal processing for noise removal...
2017: Computational and Structural Biotechnology Journal
https://www.readbyqxmd.com/read/28818628/a-prospective-multicentre-study-of-the-epidemiology-and-outcomes-of-bloodstream-infection-in-cirrhotic-patients
#14
Michele Bartoletti, Maddalena Giannella, Russell Lewis, Paolo Caraceni, Sara Tedeschi, Mical Paul, Christoph Schramm, Tony Bruns, Manuela Merli, Nazaret Cobos-Trigueros, Elena Seminari, Pilar Retamar, Patricia Muñoz, Mario Tumbarello, Patrizia Burra, Maria Torrani Cerenzia, Bruno Barsic, Ester Calbo, Alberto Enrico Maraolo, Nicola Petrosillo, Maria Angeles Galan-Ladero, Giampiero D'Offizi, Noa Bar Sinai, Jesus Rodríguez-Baño, Gabriella Verucchi, Mauro Bernardi, Pierluigi Viale
OBJECTIVE: The aim of this study was to describe the current epidemiology of BSI in patients with cirrhosis, analyse predictors of 30-day mortality, and risk factors for antibiotic resistance. METHODS: Cirrhotic patients developing a BSI episode were prospectively included at 19 centres in five countries from September 2014 to December 2015. The discrimination of mortality risk scores for 30-day mortality were compared by area under the receiver operator-risk and Cox-regression models...
August 14, 2017: Clinical Microbiology and Infection
https://www.readbyqxmd.com/read/28817732/enhanced-inflammation-in-new-zealand-white-rabbits-when-mers-cov-reinfection-occurs-in-the-absence-of-neutralizing-antibody
#15
Katherine V Houser, Andrew J Broadbent, Lisa Gretebeck, Leatrice Vogel, Elaine W Lamirande, Troy Sutton, Kevin W Bock, Mahnaz Minai, Marlene Orandle, Ian N Moore, Kanta Subbarao
The Middle East respiratory syndrome coronavirus (MERS-CoV) is a zoonotic betacoronavirus that was first detected in humans in 2012 as a cause of severe acute respiratory disease. As of July 28, 2017, there have been 2,040 confirmed cases with 712 reported deaths. While many infections have been fatal, there have also been a large number of mild or asymptomatic cases discovered through monitoring and contact tracing. New Zealand white rabbits are a possible model for asymptomatic infection with MERS-CoV. In order to discover more about non-lethal infections and to learn whether a single infection with MERS-CoV would protect against reinfection, we inoculated rabbits with MERS-CoV and monitored the antibody and inflammatory response...
August 17, 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28815001/serogrouping-and-seroepidemiology-of-north-european-hantaviruses-using-a-novel-broadly-targeted-synthetic-nucleoprotein-antigen-array
#16
Bengt Rönnberg, Olli Vapalahti, Marco Goeijenbier, Chantal Reusken, Åke Gustafsson, Jonas Blomberg, Åke Lundkvist
Introduction: Hantaviruses are globally distributed zoonotic pathogens. Great diversity and high antigenic cross-reactivity makes diagnosis by traditional methods cumbersome. Materials and methods: 'Megapeptides', 119-120-mers from the amino terminus of the nucleoprotein of 16 hantaviruses, representing the four major branches of the hantavirus phylogenetic tree, were utilized in a novel IgG-based hantavirus suspension multiplex immunoassay (HSMIA) for detection of past hantavirus infections in 155 North European human samples...
2017: Infection Ecology & Epidemiology
https://www.readbyqxmd.com/read/28813909/methodologies-for-determining-minimal-grasping-requirements-and-sensor-locations-for-semg-based-assistive-hand-orthosis-for-sci-patients
#17
Youngmok Yun, Paria Esmatloo, Alfredo Serrato, Curtis A Merring, Ashish D Deshpande
In this paper, we address two of the most important challenges in development and control of assistive hand orthosis. First, supported by experimental results, we present a method to determine an optimal set of grasping poses, essential for grasping daily objects. Second, we present a method for determining the minimal number of surface EMG sensors and their locations to carry out EMG-based intention recognition and to control the assistive device by differentiating between the hand poses.
July 2017: IEEE ... International Conference on Rehabilitation Robotics: [proceedings]
https://www.readbyqxmd.com/read/28813689/large-scale-machine-learning-of-media-outlets-for-understanding-public-reactions-to-nation-wide-viral-infection-outbreaks
#18
Sungwoon Choi, Jangho Lee, Min-Gyu Kang, Hyeyoung Min, Yoon-Seok Chang, Sungroh Yoon
From May to July 2015, there was a nation-wide outbreak of Middle East respiratory syndrome (MERS) in Korea. MERS is caused by MERS-CoV, an enveloped, positive-sense, single stranded RNA virus belonging to the family Coronaviridae. Despite expert opinions that the danger of MERS might be exaggerated, there was an overreaction by the public according to the Korean mass media, which led to a noticeable reduction in social and economic activities during the outbreak. To explain this phenomenon, we presumed that machine learning-based analysis of media outlets would be helpful and collected a number of Korean mass media articles and short-text comments produced during the 10-week outbreak...
August 13, 2017: Methods: a Companion to Methods in Enzymology
https://www.readbyqxmd.com/read/28813591/on-surface-oligomerization-of-self-terminating-molecular-chains-for-the-design-of-spintronic-devices
#19
Emil Sierda, Mikel Abadia, Jens Brede, Micha Elsebach, Bernhard Bugenhagen, Marc Heinrich Prosenc, Maciej Bazarnik, Roland Wiesendanger
Molecular spintronics is currently attracting a lot of attention due to its great advantages over traditional electronics. A variety of self-assembled molecule-based devices are under development, but studies regarding the reliability of the growth-process remain rare. Here, we present a method to control the length of molecular spintronic chains and to make their terminations chemically inert, thereby suppressing uncontrolled coupling to surface defects. The temperature evolution of chain formation was followed by X-ray photoelectron spectroscopy, to determine optimal growth conditions...
August 16, 2017: ACS Nano
https://www.readbyqxmd.com/read/28811575/biological-and-functional-characterization-of-bone-marrow-derived-mesenchymal-stromal-cells-from-patients-affected-by-primary-immunodeficiency
#20
Nadia Starc, Daniela Ingo, Antonella Conforti, Valeria Rossella, Luigi Tomao, Angela Pitisci, Fabiola De Mattia, Immacolata Brigida, Mattia Algeri, Mauro Montanari, Giuseppe Palumbo, Pietro Merli, Paolo Rossi, Alessandro Aiuti, Franco Locatelli, Maria Ester Bernardo
Mesenchymal stromal cells (MSCs) represent a key component of bone marrow (BM) microenvironment and display immune-regulatory properties. We performed a detailed analysis of biological/functional properties of BM-MSCs derived from 33 pediatric patients affected by primary immune-deficiencies (PID-MSCs): 7 Chronic Granulomatous Disease (CGD), 15 Wiskott-Aldrich Syndrome (WAS), 11 Severe Combined Immunodeficiency (SCID). Results were compared with MSCs from 15 age-matched pediatric healthy-donors (HD-MSCs). Clonogenic and proliferative capacity, differentiation ability, immunophenotype, immunomodulatory properties were analyzed...
August 15, 2017: Scientific Reports
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