keyword
MENU ▼
Read by QxMD icon Read
search

Oxygen sensitive sequence

keyword
https://www.readbyqxmd.com/read/28424572/functional-sensitivity-of-2d-simultaneous-multi-slice-echo-planar-imaging-effects-of-acceleration-on-g-factor-and-physiological-noise
#1
Nick Todd, Oliver Josephs, Peter Zeidman, Guillaume Flandin, Steen Moeller, Nikolaus Weiskopf
Accelerated data acquisition with simultaneous multi-slice (SMS) imaging for functional MRI studies leads to interacting and opposing effects that influence the sensitivity to blood oxygen level-dependent (BOLD) signal changes. Image signal to noise ratio (SNR) is decreased with higher SMS acceleration factors and shorter repetition times (TR) due to g-factor noise penalties and saturation of longitudinal magnetization. However, the lower image SNR is counteracted by greater statistical power from more samples per unit time and a higher temporal Nyquist frequency that allows for better removal of spurious non-BOLD high frequency signal content...
2017: Frontiers in Neuroscience
https://www.readbyqxmd.com/read/28400512/convergence-of-dna-methylation-and-phosphorothioation-epigenetics-in-bacterial-genomes
#2
Chao Chen, Lianrong Wang, Si Chen, Xiaolin Wu, Meijia Gu, Xi Chen, Susu Jiang, Yunfu Wang, Zixin Deng, Peter C Dedon, Shi Chen
Explosive growth in the study of microbial epigenetics has revealed a diversity of chemical structures and biological functions of DNA modifications in restriction-modification (R-M) and basic genetic processes. Here, we describe the discovery of shared consensus sequences for two seemingly unrelated DNA modification systems, (6m)A methylation and phosphorothioation (PT), in which sulfur replaces a nonbridging oxygen in the DNA backbone. Mass spectrometric analysis of DNA from Escherichia coli B7A and Salmonella enterica serovar Cerro 87, strains possessing PT-based R-M genes, revealed d(GPS(6m)A) dinucleotides in the GPS(6m)AAC consensus representing ∼5% of the 1,100 to 1,300 PT-modified d(GPSA) motifs per genome, with (6m)A arising from a yet-to-be-identified methyltransferase...
April 11, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28391398/arabidopsis-abi5-plays-a-role-in-regulating-ros-homeostasis-by-activating-catalase-1-transcription-in-seed-germination
#3
Chao Bi, Yu Ma, Zhen Wu, Yong-Tao Yu, Shan Liang, Kai Lu, Xiao-Fang Wang
It has been known that ABA INSENSITIVE 5 (ABI5) plays a vital role in regulating seed germination. In the present study, we showed that inhibition of the catalase activity with 3-amino-1,2,4-triazole (3-AT) inhibits seed germination of Col-0, abi5 mutants and ABI5-overexpression transgenic lines. Compared with Col-0, the seeds of abi5 mutants showed more sensitive to 3-AT during seed germination, while the seeds of ABI5-overexpression transgenic lines showed more insensitive. H2O2 showed the same effect on seed germination of Col-0, abi5 mutants and ABI5-overexpression transgenic lines as 3-AT...
April 8, 2017: Plant Molecular Biology
https://www.readbyqxmd.com/read/28373123/sensitivity-and-specificity-considerations-for-fmri-encoding-decoding-and-mapping-of-auditory-cortex-at-ultra-high-field
#4
Michelle Moerel, Federico De Martino, Valentin G Kemper, Sebastian Schmitter, An T Vu, Kâmil Uğurbil, Elia Formisano, Essa Yacoub
Following rapid technological advances, ultra-high field functional MRI (fMRI) enables exploring correlates of neuronal population activity at an increasing spatial resolution. However, as the fMRI blood-oxygenation-level-dependent (BOLD) contrast is a vascular signal, the spatial specificity of fMRI data is ultimately determined by the characteristics of the underlying vasculature. At 7T, fMRI measurement parameters determine the relative contribution of the macro- and microvasculature to the acquired signal...
March 31, 2017: NeuroImage
https://www.readbyqxmd.com/read/28367140/transcriptomics-indicates-active-and-passive-metronidazole-resistance-mechanisms-in-three-seminal-giardia-lines
#5
Brendan R E Ansell, Louise Baker, Samantha J Emery, Malcolm J McConville, Staffan G Svärd, Robin B Gasser, Aaron R Jex
Giardia duodenalis is an intestinal parasite that causes 200-300 million episodes of diarrhoea annually. Metronidazole (Mtz) is a front-line anti-giardial, but treatment failure is common and clinical resistance has been demonstrated. Mtz is thought to be activated within the parasite by oxidoreductase enzymes, and to kill by causing oxidative damage. In G. duodenalis, Mtz resistance involves active and passive mechanisms. Relatively low activity of iron-sulfur binding proteins, namely pyruvate:ferredoxin oxidoreductase (PFOR), ferredoxins, and nitroreductase-1, enable resistant cells to passively avoid Mtz activation...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28361707/investigation-and-identification-of-protein-carbonylation-sites-based-on-position-specific-amino-acid-composition-and-physicochemical-features
#6
Shun-Long Weng, Kai-Yao Huang, Fergie Joanda Kaunang, Chien-Hsun Huang, Hui-Ju Kao, Tzu-Hao Chang, Hsin-Yao Wang, Jang-Jih Lu, Tzong-Yi Lee
BACKGROUND: Protein carbonylation, an irreversible and non-enzymatic post-translational modification (PTM), is often used as a marker of oxidative stress. When reactive oxygen species (ROS) oxidized the amino acid side chains, carbonyl (CO) groups are produced especially on Lysine (K), Arginine (R), Threonine (T), and Proline (P). Nevertheless, due to the lack of information about the carbonylated substrate specificity, we were encouraged to develop a systematic method for a comprehensive investigation of protein carbonylation sites...
March 14, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28295824/wavelet-entropy-of-bold-time-series-an-application-to-rolandic-epilepsy
#7
Lalit Gupta, Jacobus F A Jansen, Paul A M Hofman, René M H Besseling, Anton J A de Louw, Albert P Aldenkamp, Walter H Backes
PURPOSE: To assess the wavelet entropy for the characterization of intrinsic aberrant temporal irregularities in the time series of resting-state blood-oxygen-level-dependent (BOLD) signal fluctuations. Further, to evaluate the temporal irregularities (disorder/order) on a voxel-by-voxel basis in the brains of children with Rolandic epilepsy. MATERIALS AND METHODS: The BOLD time series was decomposed using the discrete wavelet transform and the wavelet entropy was calculated...
March 11, 2017: Journal of Magnetic Resonance Imaging: JMRI
https://www.readbyqxmd.com/read/28274623/oxygen-exposure-effects-on-the-dechlorinating-activities-of-a-trichloroethene-dechlorination-microbial-consortium
#8
Na Liu, Haijun Li, Mengyan Li, Longzhen Ding, Chih-Huang Weng, Cheng-Di Dong
The aim of this work was to study the effects of the presence of oxygen on the dechlorination of trichloroethene by a microbial consortium containing D. mccartyi. The 16S rRNA and reductive dechlorination genes of the functional bacteria and the non-dechlorinators were monitored. Exposing the consortium to oxygen altered the overall biotransformation rate of the dechlorination process, biotransformation processes prolonged with oxygen concentrations changing from 0 to 7.2mg/L, however, trichloroethylene was eventually dechlorinated to ethene...
February 28, 2017: Bioresource Technology
https://www.readbyqxmd.com/read/28273720/recurrence-of-glioblastoma-is-associated-with-elevated-microvascular-transit-time-heterogeneity-and-increased-hypoxia
#9
Andreas Stadlbauer, Kim Mouridsen, Arnd Doerfler, Mikkel Bo Hansen, Stefan Oberndorfer, Max Zimmermann, Michael Buchfelder, Gertraud Heinz, Karl Roessler
Dynamic susceptibility contrast (DSC) perfusion MRI provide information about differences in macro- and microvasculature when executed with gradient-echo (GE; sensitive to macrovasculature) and spin-echo (SE; sensitive to microvasculature) contrast. This study investigated whether there are differences between macro- and microvascular transit time heterogeneity (MVTH and µVTH) and tissue oxygen tension (PO2mit) in newly-diagnosed and recurrent glioblastoma. Fifty-seven patients with glioblastoma (25 newly-diagnosed/32 recurrent) were examined with GE- and SE-DSC perfusion sequences, and a quantitative blood-oxygen-level-dependent (qBOLD) approach...
January 1, 2017: Journal of Cerebral Blood Flow and Metabolism
https://www.readbyqxmd.com/read/28253268/multiband-multi-echo-imaging-of-simultaneous-oxygenation-and-flow-timeseries-for-resting-state-connectivity
#10
Alexander D Cohen, Andrew S Nencka, R Marc Lebel, Yang Wang
A novel sequence has been introduced that combines multiband imaging with a multi-echo acquisition for simultaneous high spatial resolution pseudo-continuous arterial spin labeling (ASL) and blood-oxygenation-level dependent (BOLD) echo-planar imaging (MBME ASL/BOLD). Resting-state connectivity in healthy adult subjects was assessed using this sequence. Four echoes were acquired with a multiband acceleration of four, in order to increase spatial resolution, shorten repetition time, and reduce slice-timing effects on the ASL signal...
2017: PloS One
https://www.readbyqxmd.com/read/28219524/the-function-and-transcriptome-analysis-of-a-bzip-transcription-factor-cgap1-in-colletotrichum-gloeosporioides
#11
Xiaoyu Li, Yateng Wu, Zhiqiang Liu, Chenghui Zhang
Colletotrichum gloeosporioides is an important pathogen of anthracnose, which is able to infect numerous crops in tropical and subtropical regions, causing great economic losses. To investigate the fungal response to host-generated reactive oxygen species (ROS), we cloned and characterized the CgAP1 gene of C. gloeosporioides. CgAP1 encoded a bZIP transcription factor which had a bZIP DNA-binding domain and two cysteine-rich domains structurally and functionally related to Saccharomyces cerevisiae YAP1. Deletion of CgAP1 in C...
April 2017: Microbiological Research
https://www.readbyqxmd.com/read/28213042/gene-duplication-conservation-and-divergence-of-heme-oxygenase-2-genes-in-blunt-snout-bream-megalobrama-amblycephala-and-their-responses-to-hypoxia
#12
Xue-Li Zhang, Yi-Wen Sun, Jie Chen, Xia-Yun Jiang, Shu-Ming Zou
Heme oxygenase (HO) that catalyzes the degradation of heme, is involved in responding and using oxygen in teleost fish. Physiologic heme degradation can be catalyzed by two isozymes of HO (HO-1 and HO-2). In fish, the molecular constructions, expression characteristics and hypoxic regulation of HO-2 are still not well known. Here, we report the isolation and characterization of duplicated HO-2 genes in blunt snout bream, a hypoxia sensitive fish species. Blunt snout bream HO-2a and -2b genes shared a relatively low sequence identity of 67%...
April 30, 2017: Gene
https://www.readbyqxmd.com/read/28212410/a-high-throughput-genetic-screen-identifies-previously-uncharacterized-borrelia-burgdorferi-genes-important-for-resistance-against-reactive-oxygen-and-nitrogen-species
#13
Meghan E Ramsey, Jenny A Hyde, Diana N Medina-Perez, Tao Lin, Lihui Gao, Maureen E Lundt, Xin Li, Steven J Norris, Jon T Skare, Linden T Hu
Borrelia burgdorferi, the causative agent of Lyme disease in humans, is exposed to reactive oxygen and nitrogen species (ROS and RNS) in both the tick vector and vertebrate reservoir hosts. B. burgdorferi contains a limited repertoire of canonical oxidative stress response genes, suggesting that novel gene functions may be important for protection of B. burgdorferi against ROS or RNS exposure. Here, we use transposon insertion sequencing (Tn-seq) to conduct an unbiased search for genes involved in resistance to nitric oxide, hydrogen peroxide, and tertiary-butyl hydroperoxide in vitro...
February 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28188644/rnai-based-targeted-gene-knockdown-in-the-model-oleaginous-microalgae-nannochloropsis-oceanica
#14
Li Wei, Yi Xin, Qintao Wang, Juan Yang, Hanhua Hu, Jian Xu
Microalgae are promising feedstock for renewable fuels such as biodiesel, yet development of industrial oleaginous strains has been hindered by the paucity and inefficiency of reverse genetics tools. Here we established an efficient RNAi-based targeted gene-knockdown method for Nannochloropsis spp., which are emerging model organisms for industrial microalgal oil production. The method achieved a 40-80% success rate in Nannochloropsis oceanica strain IMET1. When transcript level of one carbonic anhydrase (CA) was inhibited by 62-83% via RNAi, mutant cells exhibited photosynthetic oxygen evolution (POE) rates that were 68-100% higher than wild-type (WT) at pH 6...
November 7, 2016: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28169346/multiple-tropical-andean-glaciations-during-a-period-of-late-pliocene-warmth
#15
Nicholas J Roberts, René W Barendregt, John J Clague
The extent and behaviour of glaciers during the mid-Piacenzian warm period illustrate the sensitivity of the cryosphere to atmospheric CO2 concentrations above pre-industrial levels. Knowledge of glaciation during this period is restricted to globally or regionally averaged records from marine sediments and to sparse terrestrial glacial deposits in mid-to-high latitudes. Here we expand the Pliocene glacial record to the tropics by reporting recurrent large-scale glaciation in the Bolivian Andes based on stratigraphic and paleomagnetic analysis of a 95-m sequence of glacial sediments underlying the 2...
February 7, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28168223/effects-of-organic-amendments-on-microbiota-associated-with-the-culex-nigripalpus-mosquito-vector-of-the-saint-louis-encephalitis-and-west-nile-viruses
#16
Dagne Duguma, Michael W Hall, Chelsea T Smartt, Josh D Neufeld
Pollution from nutrients in aquatic habitats has been linked to increases in disease vectors, including mosquitoes and other pestiferous insects. One possibility is that changes in mosquito microbiomes are impacted by nutrient enrichments and that these changes affect various traits, including larval development, susceptibility to larval control agents, and susceptibility of the adult mosquitoes to pathogens. We tested this hypothesis using field mesocosms supplemented with low- and high-organic-nutrient regimens and then sampled microbial communities associated with the naturally colonizing Culex nigripalpus mosquito vector...
January 2017: MSphere
https://www.readbyqxmd.com/read/28165644/hif1a-gene-polymorphisms-and-human-diseases-graphical-review-of-97-association-studies
#17
REVIEW
I Gladek, J Ferdin, S Horvat, G A Calin, T Kunej
Hypoxia-inducible factors (HIFs) belong to a family of transcription factors (TF) responsive to a low O2 availability, which is often a characteristic feature of solid tumors. The alpha subunit of the HIF heterodimer is O2 -sensitive, and once stabilized in hypoxia, it functions as a master regulator of various genes involved in hypoxia pathway. Changes in the HIF1A (hypoxia inducible factor 1, alpha subunit) nucleotide sequence or expression has been shown to be associated with the development of several diseases...
June 2017: Genes, Chromosomes & Cancer
https://www.readbyqxmd.com/read/28152238/assessment-of-segmental-myocardial-blood-flow-and-myocardial-perfusion-reserve-by-adenosine-stress-myocardial-arterial-spin-labeling-perfusion-imaging
#18
Andrew J Yoon, Hung Phi Do, Steven Cen, Michael W Fong, Farhood Saremi, Mark L Barr, Krishna S Nayak
PURPOSE: To determine the feasibility of measuring increases in myocardial blood flow (MBF) and myocardial perfusion reserve (MPR) on a per-segment basis using arterial spin labeled (ASL) magnetic resonance imaging (MRI) with adenosine vasodilator stress in normal human myocardium. MATERIALS AND METHODS: Myocardial ASL scans at rest and during adenosine infusion were incorporated into a routine 3T MR adenosine-induced vasodilator stress protocol and were performed in 10 healthy human volunteers...
February 2, 2017: Journal of Magnetic Resonance Imaging: JMRI
https://www.readbyqxmd.com/read/28115216/myb-like-swirm-and-mpn-domains-1-mysm1-deficiency-genotoxic-stress-associated-bone-marrow-failure-and-developmental-aberrations
#19
Ehsan Bahrami, Maximilian Witzel, Tomas Racek, Jacek Puchałka, Sebastian Hollizeck, Naschla Greif-Kohistani, Daniel Kotlarz, Hans-Peter Horny, Regina Feederle, Heinrich Schmidt, Roya Sherkat, Doris Steinemann, Gudrun Göhring, Brigitte Schlegelbeger, Michael H Albert, Waleed Al-Herz, Christoph Klein
BACKGROUND: Myb-like, SWIRM, and MPN domains 1 (MYSM1) is a transcriptional regulator mediating histone deubiquitination. Its role in human immunity and hematopoiesis is poorly understood. OBJECTIVES: We sought to investigate the clinical, cellular, and molecular features in 2 siblings presenting with progressive bone marrow failure (BMF), immunodeficiency, and developmental aberrations. METHODS: We performed genome-wide homozygosity mapping, whole-exome and Sanger sequencing, immunophenotyping studies, and analysis of genotoxic stress responses...
January 21, 2017: Journal of Allergy and Clinical Immunology
https://www.readbyqxmd.com/read/28100053/the-grateful-infrared-sequential-protein-structural-changes-resolved-by-infrared-difference-spectroscopy
#20
Tilman Kottke, Víctor A Lórenz-Fonfría, Joachim Heberle
The catalytic activity of proteins is a function of structural changes. Very often these are as minute as protonation changes, hydrogen bonding changes, and amino acid side chain reorientations. To resolve these, a methodology is afforded that not only provides the molecular sensitivity but allows for tracing the sequence of these hierarchical reactions at the same time. This feature article showcases results from time-resolved IR spectroscopy on channelrhodopsin (ChR), light-oxygen-voltage (LOV) domain protein, and cryptochrome (CRY)...
January 19, 2017: Journal of Physical Chemistry. B
keyword
keyword
83180
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"