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https://www.readbyqxmd.com/read/29234984/bober-web-interface-to-the-base-of-bioisosterically-exchangeable-replacements
#1
Samo Lešnik, Blaž Škrlj, Nika Eržen, Urban Bren, Stanislav Gobec, Janez Konc, Dušanka Janežič
We describe a novel freely available web server Base of Bioisosterically Exchangeable Replacements (BoBER), which implements an interface to a database of bioisosteric and scaffold hopping replacements. Bioisosterism and scaffold hopping are key concepts in drug design and optimization, and can be defined as replacements of biologically active compound's fragments with other fragments to improve activity, reduce toxicity, change bioavailability or to diversify the scaffold space. Our web server enables fast and user-friendly searches for bioisosteric and scaffold replacements which were obtained by mining the whole Protein Data Bank...
December 12, 2017: Journal of Cheminformatics
https://www.readbyqxmd.com/read/29220509/community-effort-endorsing-multiscale-modelling-multiscale-data-science-and-multiscale-computing-for-systems-medicine
#2
Massimiliano Zanin, Ivan Chorbev, Blaz Stres, Egils Stalidzans, Julio Vera, Paolo Tieri, Filippo Castiglione, Derek Groen, Huiru Zheng, Jan Baumbach, Johannes A Schmid, José Basilio, Peter Klimek, Nataša Debeljak, Damjana Rozman, Harald H H W Schmidt
Systems medicine holds many promises, but has so far provided only a limited number of proofs of principle. To address this road block, possible barriers and challenges of translating systems medicine into clinical practice need to be identified and addressed. The members of the European Cooperation in Science and Technology (COST) Action CA15120 Open Multiscale Systems Medicine (OpenMultiMed) wish to engage the scientific community of systems medicine and multiscale modelling, data science and computing, to provide their feedback in a structured manner...
December 5, 2017: Briefings in Bioinformatics
https://www.readbyqxmd.com/read/29215752/familial-tauopathy-with-p364s-mapt-mutation-clinical-course-neuropathology-and-ultrastructure-of-neuronal-tau-inclusions
#3
Peter Štrafela, Jerica Pleško, Jožef Magdič, Blaž Koritnik, Andrej Zupan, Damjan Glavač, Mara Bresjanac, Mara Popović
AIMS: This report presents the clinical course, neuropathology and ultrastructure of neuronal tau inclusions of four Slovene relatives with P364S MAPT mutation. METHODS: The clinical history of three out of four P364S MAPT mutation carriers was taken. After formalin fixation, thorough sampling of the central nervous system was followed by paraffin embedding, H&E, Gallyas, Bielschowsky, and immunostaining with AT8, anti-3R, anti-4R tau, anti-Amyloid-β, anti-TDP43, and anti-alpha-synuclein antibodies...
December 7, 2017: Neuropathology and Applied Neurobiology
https://www.readbyqxmd.com/read/29214760/prevalence-of-blaz-gene-and-performance-of-phenotypic-tests-to-detect-penicillinase-in-staphylococcus-aureus-isolates-from-japan
#4
Yoshiko Takayama, Takashi Tanaka, Koko Oikawa, Naoki Fukano, Mieko Goto, Takashi Takahashi
Guidelines recommend that clinical laboratories perform phenotypic tests (nitrocefin-based test and penicillin 10-U [P10] or 1-U [P1] zone edge tests) to detect penicillinase in Staphylococcus aureus isolates. This study aimed to assess the prevalence of blaZ encoding penicillinase and perform various phenotypic tests in S. aureus isolates from Japan. We prospectively collected 200 methicillin-susceptible S. aureus isolates from June 2015 to January 2016 and performed six phenotypic tests (nitrocefin-based test, P10 zone edge test/P10 diffusion test, penicillin 2-U [P2] zone edge test/P2 diffusion test, and cloverleaf test) on each sample...
March 2018: Annals of Laboratory Medicine
https://www.readbyqxmd.com/read/29211803/hypoxia-and-inactivity-related-physiological-changes-precede-or-take-place-in-absence-of-significant-rearrangements-in-bacterial-community-structure-the-planhab-randomized-trial-pilot-study
#5
Robert Šket, Nicole Treichel, Susanne Kublik, Tadej Debevec, Ola Eiken, Igor Mekjavić, Michael Schloter, Marius Vital, Jenna Chandler, James M Tiedje, Boštjan Murovec, Zala Prevoršek, Matevž Likar, Blaž Stres
We explored the assembly of intestinal microbiota in healthy male participants during the randomized crossover design of run-in (5 day) and experimental phases (21-day normoxic bed rest (NBR), hypoxic bed rest (HBR) and hypoxic ambulation (HAmb) in a strictly controlled laboratory environment, with balanced fluid and dietary intakes, controlled circadian rhythm, microbial ambiental burden and 24/7 medical surveillance. The fraction of inspired O2 (FiO2) and partial pressure of inspired O2 (PiO2) were 0.209 and 133...
2017: PloS One
https://www.readbyqxmd.com/read/29198902/inoculum-effect-of-high-concentrations-of-methicillin-susceptible-staphylococcus-aureus-on-the-efficacy-of-cefazolin-and-other-beta-lactams
#6
Masachika Saeki, Masaaki Shinagawa, Yuki Yakuwa, Shinya Nirasawa, Yuki Sato, Nozomi Yanagihara, Satoshi Takahashi
The existence of a cefazolin inoculum effect (InE) of methicillin-susceptible Staphylococcus aureus (MSSA), which is speculated to be a reason for cefazolin treatment failure in MSSA infections, is controversial. In Japan, although cefazolin is one of the therapeutic choices for patients with MSSA infection, there are few reports of this effect. Additionally, the association between InE and blaZ type in beta-lactams other than cefazolin has not been well documented. In this study, we confirmed an MSSA InE in several beta-lactams, including cefazolin, and its relationship with blaZ, using 52 MSSA isolates from blood cultures...
November 30, 2017: Journal of Infection and Chemotherapy: Official Journal of the Japan Society of Chemotherapy
https://www.readbyqxmd.com/read/29184366/polymerase-chain-reaction-detection-of-genes-responsible-for-multiple-antibiotic-resistance-staphylococcus-aureus-isolated-from-food-of-animal-origin-in-egypt
#7
Fawzy R El Seedy, A A Samy, Hala S H Salam, Eman A Khairy, Aya A Koraney
Aim: The aim of our study was polymerase chain reaction (PCR) detection of the genes responsible for the multiple antibiotic resistance S. aureus isolated from food of animal origin in Egypt. Materials and Methods: A total of 125 samples were randomly collected from milk, meat, and their products from Giza and Beni-Suef Governorates markets. The S. aureus isolates were subjected to antimicrobial sensitivity tests using four antibacterial disks (Oxoid), and then the polymerase chain reaction (PCR) was performed for detection of antibiotic resistance genes...
October 2017: Veterinary World
https://www.readbyqxmd.com/read/29155941/new-graft-sizing-rings-for-aortic-valve-reimplantation-procedures
#8
Matija Jelenc, Blaž Jelenc, Ivan Kneževic, Tomislav Klokocovnik
OBJECTIVES: The objective was to design sizing rings that would enable proper sizing of the graft in reimplantation procedures and to perform leaflet repair before graft implantation. METHODS: The rings were designed in Autodesk Fusion 360 (San Rafael, CA, USA) and 3D printed using a commercial online 3D printing service. We designed incomplete rings with a low profile and complete rings with a high profile. The complete rings are best suited for reimplantation procedures, whereas low profile C rings are intended for isolated aortic valve repair, where the ascending aorta is not transected...
August 11, 2017: Interactive Cardiovascular and Thoracic Surgery
https://www.readbyqxmd.com/read/29142246/a-comprehensive-structural-biochemical-and-biological-profiling-of-the-human-nudix-hydrolase-family
#9
Jordi Carreras-Puigvert, Marinka Zitnik, Ann-Sofie Jemth, Megan Carter, Judith E Unterlass, Björn Hallström, Olga Loseva, Zhir Karem, José Manuel Calderón-Montaño, Cecilia Lindskog, Per-Henrik Edqvist, Damian J Matuszewski, Hammou Ait Blal, Ronnie P A Berntsson, Maria Häggblad, Ulf Martens, Matthew Studham, Bo Lundgren, Carolina Wählby, Erik L L Sonnhammer, Emma Lundberg, Pål Stenmark, Blaz Zupan, Thomas Helleday
The NUDIX enzymes are involved in cellular metabolism and homeostasis, as well as mRNA processing. Although highly conserved throughout all organisms, their biological roles and biochemical redundancies remain largely unclear. To address this, we globally resolve their individual properties and inter-relationships. We purify 18 of the human NUDIX proteins and screen 52 substrates, providing a substrate redundancy map. Using crystal structures, we generate sequence alignment analyses revealing four major structural classes...
November 16, 2017: Nature Communications
https://www.readbyqxmd.com/read/29134317/the-impact-of-canal-flare-index-on-leg-length-discrepancy-after-total-hip-arthroplasty
#10
Peter Brumat, Borut Pompe, Vane Antolič, Blaž Mavčič
INTRODUCTION: The femoral stem should protrude from femur by an appropriate vertical distance to allow leg length equalization at hip arthroplasty; this distance depends on the size/shape of medullary canal and implant. The relationship between femoral morphology and achievability of leg length restoration is currently unclear. Our aim was to examine the impact of the femoral canal flare index (CFI) on the risk of leg length discrepancy (LLD) after total hip arthroplasty with different femoral stems...
November 13, 2017: Archives of Orthopaedic and Trauma Surgery
https://www.readbyqxmd.com/read/29132926/molecular-epidemiology-of-%C3%AE-lactamase-production-in-penicillin-susceptible-staphylococcus-aureus-under-high-susceptibility-conditions
#11
Takashi Matono, Maki Nagashima, Kazuhisa Mezaki, Ayano Motohashi, Satoshi Kutsuna, Kayoko Hayakawa, Norio Ohmagari, Mitsuo Kaku
Little is known about the prevalence of β-lactamase production in penicillin-susceptible Staphylococcus aureus isolates under high-susceptibility conditions. We analyzed S. aureus isolates with penicillin G minimum inhibitory concentration (MIC) ≤ 0.12 μg/ml that were recovered from in-/outpatients (n = 108) between 2016 and 2017 in Japan. β-Lactamase production was detected by nitrocefin-based and Clinical and Laboratory Standards Institute penicillin zone edge testing and blaZ PCR. All isolates were categorized as having penicillin G MIC ≤0...
November 10, 2017: Journal of Infection and Chemotherapy: Official Journal of the Japan Society of Chemotherapy
https://www.readbyqxmd.com/read/29091956/genotypic-and-phenotypic-%C3%AE-lactam-resistance-and-presence-of-pvl-gene-in-staphylococci-from-dry-bovine-udder
#12
Vinodkumar Kulangara, Neetha Nair, Asok Sivasailam, Suchithra Sasidharan, Justin Davis Kollannur, Radhika Syam
Dairy cows affected with subclinical mastitis can be sources of virulent, antimicrobial-resistant Staphylococci to humans because of the excretion of the bacteria through their milk. This study focussed on the phenotypic and genotypic antibiotic resistance patterns of Staphylococci isolated from dairy cows in early dry period. Among 96 isolates of Gram positive cocci from 157 cows, 76 were identified as Coagulase Negative Staphylococci and the remaining 20 were Staphylococcus aureus. Typical amplicons of coagulase gene were obtained for all 20 samples of S...
2017: PloS One
https://www.readbyqxmd.com/read/29051059/first-report-of-the-staphylococcus-aureus-isolate-from-subclinical-bovine-mastitis-in-the-south-of-brazil-harboring-resistance-gene-dfrg-and-transposon-family-tn916-1545
#13
Louise Haubert, Isabela Schneid Kroning, Mariana Almeida Iglesias, Wladimir Padilha da Silva
The aim of this work was to identify at the molecular level the species of coagulase-positive staphylococci isolates from clinical and subclinical bovine mastitis samples in Southern Brazil, and to evaluate the antimicrobial resistance profile, as well as the presence of resistance genes. According to the PCR assay, all 31 isolates were classified as Staphylococcus aureus. The isolates were tested for resistance to penicillin, ampicillin, oxacillin, cefoxitin, cephalothin, ceftiofur, streptomycin, tobramycin, teicoplanin, erythromycin, clindamycin, enrofloxacin, sulfonamide, trimethoprim-sulfamethoxazole, trimethoprim, and tetracycline by the disk diffusion method...
October 16, 2017: Microbial Pathogenesis
https://www.readbyqxmd.com/read/29023054/genetic-characterization-antimicrobial-resistance-patterns-and-virulence-determinants-of-staphylococcus-aureus-isolated-form-bovine-mastitis
#14
Amal Awad, Hazem Ramadan, Sherif Nasr, Ahmed Ateya, Samar Atwa
BACKGROUND AND OBJECTIVE: Staphylococcus aureus is commonly associated with mastitis in dairy herds with potential public health implications. This study was conducted to investigate the existence of S. aureus in mastitic milk and to determine the antimicrobial resistance profiles of the isolated strains as well as the resistance and virulence associated genes. MATERIALS AND METHODS: Two hundred quarter milk samples were collected from 3 dairy farms at Dakahliya (n = 2) and Damietta (n = 1) Governorates, Egypt from September to December 2016...
2017: Pakistan Journal of Biological Sciences: PJBS
https://www.readbyqxmd.com/read/29022861/molecular-characterization-prevalence-and-clinical-relevance-of-phodopus-sungorus-papillomavirus-type-1-psupv1-naturally-infecting-siberian-hamsters-phodopus-sungorus
#15
Boštjan J Kocjan, Lea Hošnjak, Joško Račnik, Marko Zadravec, Nejc Bakovnik, Blaž Cigler, Monique Ummelen, Anton H N Hopman, Nina Gale, Tanja Švara, Mitja Gombač, Mario Poljak
Phodopus sungorus papillomavirus type 1 (PsuPV1), naturally infecting Siberian hamsters (Phodopus sungorus) and clustering in the genus Pipapillomavirus (Pi-PV), is only the second PV type isolated from the subfamily of hamsters. In silico analysis of three independent complete viral genomes obtained from cervical adenocarcinoma, oral squamous cell carcinoma and normal oral mucosa revealed that PsuPV1 encodes characteristic viral proteins (E1, E2, E4, E6, E7, L1 and L2) with conserved functional domains and a highly conserved non-coding region...
November 2017: Journal of General Virology
https://www.readbyqxmd.com/read/28977678/associations-between-resistance-phenotype-and-gene-expression-in-response-to-serial-exposure-to-oxacillin-and-ciprofloxacin-in-staphylococcus-aureus
#16
M J Uddin, J Ahn
This study was designed to delineate the relationship between resistance phenotypes and gene expression in wild-type (SA(WT) ), oxacillin-induced (SA(OXA) ), ciprofloxacin-induced (SA(CIP) ) and clinically acquired antibiotic-resistant Staphylococcus aureus (SA(CA) ) exposed to oxacillin (β-lactam) and ciprofloxacin (fluoroquinolone). The phenotypic response and gene expression were varied with the antibiotic exposure. SA(WT) was highly resistant to oxacillin (MIC = 8 μg ml(-1) ) after serial exposure to oxacillin, while the oxacillin susceptibility was not changed in SA(WT) when exposed to ciprofloxacin (MIC = 0·25 μg ml(-1) )...
October 4, 2017: Letters in Applied Microbiology
https://www.readbyqxmd.com/read/28975816/july-2017-encals-statement-on-edaravone
#17
Ammar Al-Chalabi, Peter M Andersen, Siddharthan Chandran, Adriano Chio, Philippe Corcia, Philippe Couratier, Olof Danielsson, Mamede de Carvalho, Claude Desnuelle, Torsten Grehl, Julian Grosskreutz, Trygve Holmøy, Caroline Ingre, Merete Karlsborg, Grethe Kleveland, Jan Christoph Koch, Blaz Koritnik, Magdalena KuzmaKozakiewicz, Hannu Laaksovirta, Albert Ludolph, Christopher McDermott, Thomas Meyer, Bernardo Mitre Ropero, Jesus Mora Pardina, Ingela Nygren, Susanne Petri, Mónica Povedano Panades, Francois Salachas, Pamela Shaw, Vincenzo Silani, Gert Staaf, Kirsten Svenstrup, Kevin Talbot, Ole-Bjørn Tysnes, Philip Van Damme, Anneke van der Kooi, Markus Weber, Patrick Weydt, Joachim Wolf, Orla Hardiman, Leonard H van den Berg
No abstract text is available yet for this article.
November 2017: Amyotrophic Lateral Sclerosis and Frontotemporal Degeneration
https://www.readbyqxmd.com/read/28940535/experimental-and-numerical-assessment-of-hyperthermic-laser-lipolysis-with-1-064%C3%A2-nm-nd-yag-laser-on-a-porcine-fatty-tissue-model
#18
Matija Milanic, Blaz Tasic Muc, Matija Jezersek, Matjaz Lukac
BACKGROUND AND OBJECTIVES: The aim of this study was to develop experimental and numerical models for a better understanding of hyperthermic laser lipolysis (HHL). STUDY DESIGN: A 3 cm thick porcine fat sample was irradiated over a 4.3 × 4.7 cm(2) area for 2 minutes with a 1,064 nm Nd:YAG laser using 1.2 W/cm(2) irradiance. Two irradiation scenarios were considered: without and with forced air cooling. Following the irradiation, the sample was left to cool down by natural convection...
September 20, 2017: Lasers in Surgery and Medicine
https://www.readbyqxmd.com/read/28865851/prevalence-antimicrobial-susceptibility-and-molecular-characterization-of-staphylococcus-aureus-isolated-from-dairy-herds-in-northern-china
#19
Huimin Liu, Songli Li, Lu Meng, Lei Dong, Shengguo Zhao, Xinyi Lan, Jiaqi Wang, Nan Zheng
Staphylococcus aureus is one of the main pathogens involved in dairy cow mastitis. Monitoring of antibiotic use would prove useful to assess the risk of Staph. aureus in raw milk. The objective of this work was to investigate the prevalence of Staph. aureus strais isolated from raw milk in northern China, and to characterize antimicrobial susceptibility of these strains and their key virulence genes. In total, 195 raw milk samples were collected from 195 dairy farms located in 4 cities of northern China from May to September 2015...
November 2017: Journal of Dairy Science
https://www.readbyqxmd.com/read/28862669/antimicrobial-susceptibility-of-staphylococcus-aureus-isolated-from-recreational-waters-and-beach-sand-in-eastern-cape-province-of-south-africa
#20
Olufemi Emmanuel Akanbi, Henry Akum Njom, Justine Fri, Anthony C Otigbu, Anna M Clarke
Background: Resistance of Staphylococcus aureus to commonly used antibiotics is linked to their ability to acquire and disseminate antimicrobial-resistant determinants in nature, and the marine environment may serve as a reservoir for antibiotic-resistant bacteria. This study determined the antibiotic sensitivity profile of S.aureus isolated from selected beach water and intertidal beach sand in the Eastern Cape Province of South Africa. Methods: Two hundred and forty-nine beach sand and water samples were obtained from 10 beaches from April 2015 to April 2016...
September 1, 2017: International Journal of Environmental Research and Public Health
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