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https://www.readbyqxmd.com/read/27901267/binge-alcohol-intake-after-hypergravity-stress-sustainably-decreases-ampk-and-transcription-factors-necessary-for-hepatocyte-survival
#1
Sang Gil Lee, Hong Min Wu, Chan Gyu Lee, Choong Sik Oh, So Won Chung, Sang Geon Kim
BACKGROUND: Binge alcohol consumption elicits mitochondrial dysfunction in hepatocytes. An understanding of the effect of ethanol (EtOH) exposure after hypergravity stress on liver function may assist in the implementation of pathophysiological countermeasures for aerospace missions. This study investigated whether a combination of hypergravity stress and binge alcohol intake has a detrimental effect on AMP-activated protein kinase (AMPK) and other molecules necessary for hepatocyte survival...
November 30, 2016: Alcoholism, Clinical and Experimental Research
https://www.readbyqxmd.com/read/27882299/application-of-target-capture-sequencing-of-exons-and-conserved-non-coding-sequences-to-20-inbred-rat-strains
#2
Minako Yoshihara, Tetsuya Sato, Daisuke Saito, Osamu Ohara, Takashi Kuramoto, Mikita Suyama
We report sequence data obtained by our recently devised target capture method TargetEC applied to 20 inbred rat strains. This method encompasses not only all annotated exons but also highly conserved non-coding sequences shared among vertebrates. The total length of the target regions covers 146.8 Mb. On an average, we obtained 31.7 × depth of target coverage and identified 154,330 SNVs and 24,368 INDELs for each strain. This corresponds to 470,037 unique SNVs and 68,652 unique INDELs among the 20 strains...
December 2016: Genomics Data
https://www.readbyqxmd.com/read/27864074/clinically-isolated-enterovirus-a71-subgenogroup-c4-strain-with-lethal-pathogenicity-in-14-day-old-mice-and-the-application-as-an-ev-a71-mouse-infection-model
#3
Yi Xu, Shuzhi Ma, Limeng Zhu, Zhiqiu Huang, Liyun Chen, Yuhua Xu, Haibin Yin, Tao Peng, Yi Wang
The Enterovirus A71 (EV-A71) subgenogroup C4 is prevalent in China. EV-A71 causes hand, foot and mouth disease (HFMD) in children and may lead to severe neurological diseases. The development of antiviral and protective vaccines against EV-A71 is significantly hindered by the lack of suitable animal models to recapitulate human neurological symptoms. In this study, GZ-CII, a highly virulent EV-A71 subgenogroup C4 strain, was isolated from hospitalized children with HFMD. Intraperitoneal infections of GZ-CII resulted in progressive neurological disease in mice as old as 14 days...
November 15, 2016: Antiviral Research
https://www.readbyqxmd.com/read/27855637/protein-ligand-specific-binding-residue-predictions-by-an-ensemble-classifier
#4
Xiuzhen Hu, Kai Wang, Qiwen Dong
BACKGROUND: Prediction of ligand binding sites is important to elucidate protein functions and is helpful for drug design. Although much progress has been made, many challenges still need to be addressed. Prediction methods need to be carefully developed to account for chemical and structural differences between ligands. RESULTS: In this study, we present ligand-specific methods to predict the binding sites of protein-ligand interactions. First, a sequence-based method is proposed that only extracts features from protein sequence information, including evolutionary conservation scores and predicted structure properties...
November 17, 2016: BMC Bioinformatics
https://www.readbyqxmd.com/read/27849510/g-induced-visual-symptoms-in-a-military-helicopter-pilot
#5
Terry W McMahon, David G Newman
INTRODUCTION: Military helicopters are increasingly agile and capable of producing significant G forces experienced in the longitudinal (z) axis of the body in a head-to-foot direction (+Gz). Dehydration and fatigue can adversely affect a pilot's +Gz tolerance, leading to +Gz-induced symptomatology occurring at lower +Gz levels than expected. The potential for adverse consequences of +Gz exposure to affect flight safety in military helicopter operations needs to be recognized. This case report describes a helicopter pilot who experienced +Gz-induced visual impairment during low-level flight...
November 2016: Military Medicine
https://www.readbyqxmd.com/read/27837370/intraocular-pressure-and-cerebral-oxygenation-during-prolonged-headward-acceleration
#6
Ola Eiken, Michail E Keramidas, Nigel A S Taylor, Mikael Grönkvist
PURPOSE: Supra-tolerance head-to-foot directed gravitoinertial load (+Gz) typically induces a sequence of symptoms/signs, including loss of: peripheral vision-central vision-consciousness. The risk of unconsciousness is greater when anti-G-garment failure occurs after prolonged rather than brief exposures, presumably because, in the former condition, mental signs are not consistently preceded by impaired vision. The aims were to investigate if prolonged exposure to moderately elevated +Gz reduces intraocular pressure (IOP; i...
November 11, 2016: European Journal of Applied Physiology
https://www.readbyqxmd.com/read/27802032/uncovering-the-role-of-oxygen-atom-transfer-in-ru-based-catalytic-water-oxidation
#7
Dooshaye Moonshiram, Yuliana Pineda-Galvan, Darren Erdman, Mark C Palenik, Ruifa Zong, Randolph P Thummel, Yulia N Pushkar
The realization of artificial photosynthesis carries the promise of cheap and abundant energy, however, significant advances in the rational design of water oxidation catalysts are required. Detailed information on the structure of the catalyst under reaction conditions and mechanisms of O-O bond formation should be obtained. Here, we used a combination of Electron Paramagnetic Resonance (EPR), stopped flow freeze quench on a millisecond-second time scale, X-ray absorption (XAS), Resonance Raman (RR) spectroscopy and Density Functional Theory (DFT) to follow the dynamics of the Ru-based single site catalyst, [Ru(II)(NPM)(4-pic)2(H2O)](2+) (NPM = 4-t-butyl-2,6-di(1',8'-naphthyrid-2'-yl)pyridine, pic = 4-picoline), under the water oxidation conditions...
November 1, 2016: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/27797764/rednemo-topology-based-ppi-network-reconstruction-via-repeated-diffusion-with-neighborhood-modifications
#8
Ferhat Alkan, Cesim Erten
MOTIVATION: Analysis of protein-protein interaction (PPI) networks provides invaluable insight into several systems biology problems. High-throughput experimental techniques together with computational methods provide large-scale PPI networks. However a major issue with these networks is their erroneous nature; they contain false-positive interactions and usually many more false-negatives. Recently several computational methods have been proposed for network reconstruction based on topology, where given an input PPI network the goal is to reconstruct the network by identifying false positives/negatives as correctly as possible...
October 22, 2016: Bioinformatics
https://www.readbyqxmd.com/read/27779951/neck-muscle-strain-in-air-force-pilots-wearing-night-vision-goggles
#9
Magnus Wallquist Pousette, Riccardo Lo Martire, Jan Linder, Mats Kristoffersson, Björn O Äng
INTRODUCTION: Flight-induced neck pain is common in high performance jet pilots, with incidents frequently attributed to high Gz flight maneuvers. The additional load of helmet-mounted night vision goggles (NVG) is believed to increase the risk, possibly from neck muscle strain in counteracting muscles. Hence, the aim was to investigate the effect of NVG on neck muscle strain as well as on the activity level distribution through a simulated flight session in air force pilots. METHODS: In this post hoc randomized crossover trial, four senior air force pilots each completed two identical 1...
2016: Aerospace Medicine and Human Performance
https://www.readbyqxmd.com/read/27722882/bioremediation-of-cd-by-strain-gz-22-isolated-from-mine-soil-based-on-biosorption-and-microbially-induced-carbonate-precipitation
#10
Yue Zhao, Jun Yao, Zhimin Yuan, Tianqi Wang, Yiyue Zhang, Fei Wang
Microbially induced carbonate precipitation (MICP) is an emerging and promising bioremediation technology to restore the environment polluted by heavy metals. Carbonate-biomineralization microbe can immobilize heavy metals from mobile species into stable crystals. In the present manuscript, laboratory batch studies were conducted to evaluate the Cd removal ability based on biosorption and MICP, using carbonate-biomineralization microbe GZ-22 isolated from a mine soil. This strain was identified as a Bacillus sp...
October 8, 2016: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/27551371/variation-of-life-history-traits-of-the-asian-corn-borer-ostrinia-furnacalis-in-relation-to-temperature-and-geographical-latitude
#11
Liang Xiao, Hai-Min He, Li-Li Huang, Ting Geng, Shu Fu, Fang-Sen Xue
Life-history traits from four geographical populations (tropical Ledong population [LD], subtropical Guangzhou [GZ] and Yongxiu populations, and temperate Langfang population [LF]) of the Asian corn borer, Ostrinia furnacalis were investigated at a wide range of temperatures (20-32°C). The larval and pupal times were significantly decreased with increasing rearing temperature, and growth rate was positively correlated with temperature. The relationship between body weight and rearing temperature in O. furnacalis did not follow the temperature-size rule (TSR); all populations exhibited the highest pupal and adult weights at high temperatures or intermediate temperatures...
August 2016: Ecology and Evolution
https://www.readbyqxmd.com/read/27549623/receiver-operating-characteristics-of-impulse-oscillometry-parameters-for-predicting-obstructive-sleep-apnea-in-preobese-and-obese-snorers
#12
Arikin Abdeyrim, Liang Tang, Arzugl Muhamat, Kelimu Abudeyrim, YongPing Zhang, NanFang Li, Yinchun Wang, Minghua Zhao
BACKGROUND: Inability to maintain upper-airway patency during sleep is a cause of obstructive sleep apnea (OSA) and its sequelae. The associated syndrome (OSAS) is common in obese populations, currently, nocturnal polysomnography is the gold standard for diagnosing this conditions, but the diagnostic procedures are expensive and time-consuming. Therefore, identification of new markers of OSAS would be useful. This study aims to examine the receiver operating characteristics of impulse oscillometry (IOS) parameters for the prediction of OSAS in preobese and obese snoring patients...
August 22, 2016: BMC Pulmonary Medicine
https://www.readbyqxmd.com/read/27530312/redirecting-t-cells-to-glypican-3-with-4-1bb-zeta-chimeric-antigen-receptors-results-in-th1-polarization-and-potent-antitumor-activity
#13
Wenpeng Li, Linjie Guo, Purva Rathi, Ekaterina Marinova, Xiuhua Gao, Meng-Feng Wu, Hao Liu, Gianpietro Dotti, Stephen Gottschalk, Leonid S Metelitsa, Andras Heczey
T cells engineered to express CD19-specific chimeric antigen receptors (CARs) have shown breakthrough clinical successes in patients with B-cell lymphoid malignancies. However, similar therapeutic efficacy of CAR T cells in solid tumors is yet to be achieved. In this study we systematically evaluated a series of CAR constructs targeting glypican-3 (GPC3), which is selectively expressed on several solid tumors. We compared GPC3-specific CARs that encoded CD3ζ (Gz) alone or with costimulatory domains derived from CD28 (G28z), 4-1BB (GBBz), or CD28 and 4-1BB (G28BBz)...
August 16, 2016: Human Gene Therapy
https://www.readbyqxmd.com/read/27448529/effects-of-different-arbuscular-mycorrhizal-fungal-backgrounds-and-soils-on-olive-plants-growth-and-water-relation-properties-under-well-watered-and-drought-conditions
#14
Monica Calvo-Polanco, Iván Sánchez-Castro, Manuel Cantos, José Luis García, Rosario Azcón, Juan Manuel Ruiz-Lozano, Carmen R Beuzón, Ricardo Aroca
The adaptation capacity of olive trees to different environments is well recognized. However, the presence of microorganisms in the soil is also a key factor in the response of these trees to drought. The objective of the present study was to elucidate the effects of different arbuscular mycorrhizal (AM) fungi coming from diverse soils on olive plant growth and water relations. Olive plants were inoculated with native AM fungal populations from two contrasting environments, that is, semi-arid - Freila (FL) and humid - Grazalema (GZ) regions, and subjected to drought stress...
November 2016: Plant, Cell & Environment
https://www.readbyqxmd.com/read/27431225/emergence-and-plasmid-analysis-of-klebsiella-pneumoniae-kp01-carrying-blages-5-from-guangzhou-china
#15
Ding-Qiang Chen, Ai-Wu Wu, Ling Yang, Dan-Hong Su, Yong-Ping Lin, Yan-Wei Hu, Lei Zheng, Qian Wang
Klebsiella pneumoniae strain KP01 carrying blaGES-5 was identified from a patient in Guangzhou, China. High-throughput sequencing assigned blaGES-5 to a 28.5-kb nonconjugative plasmid, pGES-GZ. A 13-kb plasmid backbone sequence on pGES-GZ was found to share high sequence identities with plasmids from Gram-negative nonfermenters. A novel class 1 integron carrying a gene cassette array of orf28-orf28-blaGES-5 was identified on pGES-GZ, within which orf28 encoded a hypothetical protein possibly correlated to fosfomycin resistance...
October 2016: Antimicrobial Agents and Chemotherapy
https://www.readbyqxmd.com/read/27420300/geauxdock-accelerating-structure-based-virtual-screening-with-heterogeneous-computing
#16
Ye Fang, Yun Ding, Wei P Feinstein, David M Koppelman, Juana Moreno, Mark Jarrell, J Ramanujam, Michal Brylinski
Computational modeling of drug binding to proteins is an integral component of direct drug design. Particularly, structure-based virtual screening is often used to perform large-scale modeling of putative associations between small organic molecules and their pharmacologically relevant protein targets. Because of a large number of drug candidates to be evaluated, an accurate and fast docking engine is a critical element of virtual screening. Consequently, highly optimized docking codes are of paramount importance for the effectiveness of virtual screening methods...
2016: PloS One
https://www.readbyqxmd.com/read/27416957/field-inhomogeneity-correction-for-gradient-echo-myelin-water-fraction-imaging
#17
Eva Alonso-Ortiz, Ives R Levesque, Raphaël Paquin, G Bruce Pike
PURPOSE: Recently, the multi-echo gradient echo (MGRE) sequence has been proposed for multicomponent T2* (MC T2*) based myelin water fraction (MWF) mapping. This approach has appeal because it can provide fast whole-brain coverage, has low specific absorption rate, and short echo spacing. However, the MGRE signal requires correction for accurate MWF mapping, because of its sensitivity to magnetic field inhomogeneities (ΔB0 ). We propose a ΔB0 correction method for 2D MGRE data obtained for MWF mapping...
July 15, 2016: Magnetic Resonance in Medicine: Official Journal of the Society of Magnetic Resonance in Medicine
https://www.readbyqxmd.com/read/27402900/samexplorer-exploring-reproducibility-and-robustness-of-rna-seq-results-based-on-sam-files
#18
Alexey Stupnikov, Shailesh Tripathi, Ricardo de Matos Simoes, Darragh McArt, Manuel Salto-Tellez, Galina Glazko, Matthias Dehmer, Frank Emmert-Streib
MOTIVATION: Data from RNA-seq experiments provide us with many new possibilities to gain insights into biological and disease mechanisms of cellular functioning. However, the reproducibility and robustness of RNA-seq data analysis results is often unclear. This is in part attributed to the two counter acting goals of (a) a cost efficient and (b) an optimal experimental design leading to a compromise, e.g., in the sequencing depth of experiments. RESULTS: We introduce an R package called samExploreR that allows the subsampling (m out of n bootstraping) of short-reads based on SAM files facilitating the investigation of sequencing depth related questions for the experimental design...
July 10, 2016: Bioinformatics
https://www.readbyqxmd.com/read/27397907/cleaning-the-grey-zones-of-hospitals-a-prospective-crossover-interventional-study
#19
Makeda Semret, Alina Dyachenko, Leila Ramman-Haddad, Eric Belzile, Jane McCusker
BACKGROUND: Environmental cleaning is a fundamental principle of infection prevention in hospitals, but its role in reducing transmission of health care-acquired pathogens has been difficult to prove experimentally. In this study we analyze the influence of cleaning previously uncleaned patient care items, grey zones (GZ), on health care-acquired transmission rates. METHODS: The intervention consisted of specific GZ cleaning by an extra cleaner (in addition to routine cleaning) on 2 structurally different acute care medical wards for a period of 6 months each, in a crossover design...
December 1, 2016: American Journal of Infection Control
https://www.readbyqxmd.com/read/27336403/phylogeny-reconstruction-with-alignment-free-method-that-corrects-for-horizontal-gene-transfer
#20
Raquel Bromberg, Nick V Grishin, Zbyszek Otwinowski
Advances in sequencing have generated a large number of complete genomes. Traditionally, phylogenetic analysis relies on alignments of orthologs, but defining orthologs and separating them from paralogs is a complex task that may not always be suited to the large datasets of the future. An alternative to traditional, alignment-based approaches are whole-genome, alignment-free methods. These methods are scalable and require minimal manual intervention. We developed SlopeTree, a new alignment-free method that estimates evolutionary distances by measuring the decay of exact substring matches as a function of match length...
June 2016: PLoS Computational Biology
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