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https://www.readbyqxmd.com/read/28734205/identification-of-mycobacterium-tuberculosis-enoyl-acyl-carrier-protein-reductase-inhibitors-a-combined-in-silico-and-in-vitro-analysis
#1
Mohsin Y Lone, Mohd Athar, Vivek K Gupta, Prakash C Jha
Mycobacterium tuberculosis (Mtb), had developed evolutionary changes in its genome to adapt for survival and thereby generated multi-drug resistant strains. However, novel drug targets that remained unchanged for their biochemical role has impressed the research community to target such proteins. The comprehensive analysis of multiple protein targets has influenced us to make a consensus structural rule exploited by pharmacophore and other allied techniques from a large repository of protein structures. In this pursuit, we made a retrospective analysis of pharmacophores mapped from the tuberculosis structural proteome and identified unique patterns that can be employed for the novel molecules design...
July 14, 2017: Journal of Molecular Graphics & Modelling
https://www.readbyqxmd.com/read/28731563/improving-fructose-utilization-and-butanol-production-by-clostridium-acetobutylicum-via-extracellular-redox-potential-regulation-and-intracellular-metabolite-analysis
#2
Li-Jie Chen, You-Duo Wu, Chuang Xue, Feng-Wu Bai
Jerusalem artichoke (JA) can grow well in marginal lands with high biomass yield, and thus is a potential energy crop for biorefinery. The major biomass of JA is from tubers, which contain inulin that can be easily hydrolyzed into a mixture of fructose and glucose, but fructose utilization for producing butanol as an advanced biofuel is poor compared to glucose-based ABE fermentation by Clostridium acetobutylicum. In this article, the impact of extracellular redox potential (ORP) on the process was studied using a mixture of fructose and glucose to simulate the hydrolysate of JA tubers...
July 21, 2017: Biotechnology Journal
https://www.readbyqxmd.com/read/28731346/kinetics-of-light-induced-intramolecular-energy-transfer-in-different-conformational-states-of-nadh
#3
Zsuzsanna Heiner, Thomas Roland, Jérémie Léonard, Stefan Haacke, Géza I Groma
When bound to a protein, the coenzyme NAD+/NADH typically exists in an extended conformation, while in aqueous solutions it can be characterized by an equilibrium of folded and unfolded structures. It was recognized long ago that in the folded conformation light absorption at the adenine ring initiates an effective energy transfer (ET) towards the nicotinamide group, but the mechanism of this process is still unexplored. Here we apply ultrafast transient absorption measurements on NADH combined with compartmental model analysis for following the kinetics of the ET...
July 21, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28724915/quinolinate-phosphoribosyltransferase-is-an-antiviral-host-factor-against-hepatitis-c-virus-infection
#4
Zhilong Wang, Yanhang Gao, Chao Zhang, Haiming Hu, Dongwei Guo, Yi Xu, Qiuping Xu, Weihong Zhang, Sisi Deng, Pingyun Lv, Yan Yang, Yanhua Ding, Qingquan Li, Changjiang Weng, Xinwen Chen, Sitang Gong, Hairong Chen, Junqi Niu, Hong Tang
HCV infection can decrease NAD(+)/NADH ratio, which could convert lipid metabolism to favor HCV replication. In hepatocytes, quinolinate phosphoribosyl transferase (QPRT) catabolizes quinolinic acid (QA) to nicotinic acid mononucleotide (NAMN) for de novo NAD synthesis. However, whether and how HCV modulates QPRT hence the lipogenesis is unknown. In this work, we found QPRT was reduced significantly in livers of patients or humanized C/O(Tg) mice with persistent HCV infection. Mechanistic studies indicated that HCV NS3/4A promoted proteasomal degradation of QPRT through Smurf2, an E3 ubiquitin-protein ligase, in Huh7...
July 19, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28724620/thioredoxin-mediated-ros-homeostasis-explains-natural-variation-in-plant-regeneration
#5
Hui Zhang, Ting Ting Zhang, Hui Liu, De Ying Shi, Meng Wang, Xiao Min Bie, Xing Guo Li, Xian Sheng Zhang
Plant regeneration is fundamental to basic research and agricultural applications. The regeneration capacity of plants varies largely in different genotypes, but the reason for this variation remains elusive. Here, we identified a novel thioredoxin DCC1 in determining the capacity of shoot regeneration among Arabidopsis natural variation. Loss-of-function of DCC1 resulted in inhibited shoot regeneration. DCC1 was mainly expressed in the inner tissues of the callus and encoded a functional thioredoxin that was localized in the mitochondria...
July 19, 2017: Plant Physiology
https://www.readbyqxmd.com/read/28721526/genetic-characterization-of-human-hydatid-cysts-shows-coinfection-by-echinococcus-canadensis-g7-and-echinococcus-granulosus-sensu-stricto-g1-in-argentina
#6
María Florencia Debiaggi, Silvia Viviana Soriano, Nora Beatriz Pierangeli, Lorena Evelina Lazzarini, Luis Alfredo Pianciola, Melina Leonor Mazzeo, Sergio Moguillansky, Juan Angel Basualdo Farjat
Human cystic echinococcosis caused by the larval stage of Echinococcus granulosus sensu lato (s.l.) is a highly endemic disease in the province of Neuquén, Patagonia, Argentina. Human infections with E. granulosus sensu stricto (s.s.) G1 and Echinococcus canadensis G6 were reported in Neuquén in previous studies, whereas four genotypes were identified in livestock: G1, G3, G6, and G7. The aim of this study was to identify the genotypes of E. granulosus s.l. isolates from humans of Neuquén province, Patagonia, Argentina, through the 2005-2014 period...
July 18, 2017: Parasitology Research
https://www.readbyqxmd.com/read/28719873/characteristics-of-electron-transport-chain-and-affecting-factors-for-thiosulfate-driven-perchlorate-reduction
#7
Chao Zhang, Jianbo Guo, Jing Lian, Caicai Lu, Huu Hao Ngo, Wenshan Guo, Yuanyuan Song, Yankai Guo
The mechanism for perchlorate reduction was investigated using thiosulfate-driven (T-driven) perchlorate reduction bacteria. The influences of various environmental conditions on perchlorate reduction, including pH, temperature and electron acceptors were examined. The maximum perchlorate removal rate was observed at pH 7.5 and 40 °C. Perchlorate reduction was delayed due to the coexistence of perchlorate-chlorate and perchlorate-nitrate. The mechanism of the T-driven perchlorate reduction electron transport chain (ETC) was also investigated by utilizing different inhibitors...
July 12, 2017: Chemosphere
https://www.readbyqxmd.com/read/28718701/occludin-regulates-glucose-uptake-and-atp-production-in-pericytes-by-influencing-amp-activated-protein-kinase-activity
#8
Victor Castro, Marta Skowronska, Jorge Lombardi, Jane He, Neil Seth, Martina Velichkovska, Michal Toborek
Energetic regulation at the blood-brain barrier is critical for maintaining its integrity, transport capabilities, and brain demands for glucose. However, the underlying mechanisms that regulate these processes are still poorly explored. We recently characterized the protein occludin as a NADH oxidase and demonstrated its influence on the expression and activation of the histone deacetylase SIRT-1. Because SIRT-1 works in concert with AMP-activated protein kinase (AMPK) (AMPK), we investigated the impact of occludin on this metabolic switch...
January 1, 2017: Journal of Cerebral Blood Flow and Metabolism
https://www.readbyqxmd.com/read/28718507/gene-expression-analyses-reveal-metabolic-specifications-in-acute-o2-sensing-chemoreceptor-cells
#9
Lin Gao, Victoria Bonilla-Henao, Paula García-Flores, Ignacio Arias-Mayenco, Patricia Ortega-Sáenz, José López-Barneo
Acute O2 sensing is a fundamental property of cells in the peripheral chemoreceptors, e.g. glomus cells in the carotid body (CB) and chromaffin cells in the adrenal medulla (AM), and is necessary for adaptation to hypoxia. These cells contain O2 -sensitive ion channels, which mediate membrane depolarization and transmitter release upon exposure to hypoxia. However, the mechanisms underlying the detection of changes in O2 tension by cells are still poorly understood. Recently, we suggested that CB glomus cells have specific metabolic features that favour the accumulation of reduced quinone and the production of mitochondrial NADH and reactive oxygen species during hypoxia...
July 17, 2017: Journal of Physiology
https://www.readbyqxmd.com/read/28717559/measuring-the-effect-of-a-western-diet-on-liver-tissue-architecture-by-flim-autofluorescence-and-harmonic-generation-microscopy
#10
Suman Ranjit, Alexander Dvornikov, Evgenia Dobrinskikh, Xiaoxin Wang, Yuhuan Luo, Moshe Levi, Enrico Gratton
The phasor approach to auto-fluorescence lifetime imaging was used to identify and characterize a long lifetime species (LLS) (~7.8 ns) in livers of mice fed with a Western diet. The size of the areas containing this LLS species depends on the type of diet and the size distribution shows Western diet has much larger LLS sizes. Combination of third harmonic generation images with FLIM identified the LLS species with fat droplets and the droplet size distribution was estimated. Second harmonic generation microscopy combined with phasor FLIM shows that there is an increase in fibrosis with a Western diet...
July 1, 2017: Biomedical Optics Express
https://www.readbyqxmd.com/read/28715469/cofactor-engineering-improved-calb-production-in-pichia-pastoris-through-heterologous-expression-of-nadh-oxidase-and-adenylate-kinase
#11
Charumathi Jayachandran, Balakumaran Palanisamy Athiyaman, Meenakshisundaram Sankaranarayanan
The cofactor engineering strategy can relieve the metabolic stress induced by expression of recombinant protein in cellular metabolism related to cofactor and energy reactions. To study the effect of cofactor regeneration on recombinant protein expression, NADH oxidase (noxE) was engineered in P. pastoris expressing lipase B (GSCALB). Expression of noxE in P. pastoris (GSCALBNOX) increased NAD+ levels by 85% with a concomitant reduction in NADH/NAD+ ratio of 67% compared to GSCALB. The change in the redox level positively influenced the methanol uptake rate and made 34% augment in CALB activity...
2017: PloS One
https://www.readbyqxmd.com/read/28714949/aspartate-%C3%AE-hydroxylase-disrupts-mitochondrial-dna-stability-and-function-in-hepatocellular-carcinoma
#12
C Tang, Y Hou, H Wang, K Wang, H Xiang, X Wan, Y Xia, J Li, W Wei, S Xu, Z Lei, T M Pawlik, H Wang, M Wu, F Shen
The mechanism of aberrant mitochondrial genome and function in hepatocellular carcinoma (HCC) remains largely unknown. Our previous study demonstrated an increased expression of aspartate β-hydroxylase (ASPH) in HCC tissues, which was associated with tumor invasiveness and a worse prognosis. Currently, we unexpectedly observed the presence of ASPH in purified mitochondrial protein fraction. In addition, immunostaining of both exogenously and endogenously expressed ASPH showed a colocalization with mitochondrial biomarkers...
July 17, 2017: Oncogenesis
https://www.readbyqxmd.com/read/28714002/identification-of-key-genes-in-gram%C3%A2-positive-and-gram%C3%A2-negative-sepsis-using-stochastic-perturbation
#13
Zhenliang Li, Ying Zhang, Yaling Liu, Yanchun Liu, Youyi Li
Sepsis is an inflammatory response to pathogens (such as Gram‑positive and Gram‑negative bacteria), which has high morbidity and mortality in critically ill patients. The present study aimed to identify the key genes in Gram‑positive and Gram‑negative sepsis. GSE6535 was downloaded from Gene Expression Omnibus, containing 17 control samples, 18 Gram‑positive samples and 25 Gram‑negative samples. Subsequently, the limma package in R was used to screen the differentially expressed genes (DEGs). Hierarchical clustering was conducted for the specific DEGs in Gram‑negative and Gram‑negative samples using cluster software and the TreeView software...
July 15, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/28712341/genetic-analysis-of-bactrocera-zonata-diptera-tephritidae-populations-from-india-based-on-cox1-and-nad1-gene-sequences
#14
Jaipal S Choudhary, Naiyar Naaz, Moanaro Lemtur, Bikash Das, Arun Kumar Singh, Bhagwati P Bhatt, Chandra S Prabhakar
The peach fruit fly, Bactrocera zonata, is among the most serious and polyphagous insect pest of fruit crops in many parts of the world under genus Bactrocera. In the present study, the genetic structure, diversity and demographic history of B. zonata in India were inferred from mitochondrial cytochrome oxidase 1 (cox1) and NADH dehydrogenase 1 (nad1) sequences. The efficiency of DNA barcodes for identification of B. zonata was also tested. Genetic diversity indices [number of haplotypes (H), haplotype diversity (Hd), nucleotide diversity (π) and average number of nucleotide differences (k)] of B...
July 15, 2017: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://www.readbyqxmd.com/read/28711923/acute-myeloid-leukemia-cells-require-6-phosphogluconate-dehydrogenase-for-cell-growth-and-nadph-dependent-metabolic-reprogramming
#15
Haymanti Bhanot, Ellen L Weisberg, Mamatha M Reddy, Atsushi Nonami, Donna Neuberg, Richard M Stone, Klaus Podar, Ravi Salgia, James D Griffin, Martin Sattler
Acute myeloid leukemia (AML) cells are highly dependent on glycolytic pathways to generate metabolic energy and support cell growth, hinting at specific, targetable vulnerabilities as potential novel targets for drug development. Elevated levels of NADPH, a central metabolic factor involved in redox reactions, are common in myeloid leukemia cells, but the significance or biochemical basis underlying this increase is unknown. Using a small molecule analog that efficiently inhibits NADPH-producing enzymes, we found that AML cells require NADPH homeostasis for cell growth...
June 28, 2017: Oncotarget
https://www.readbyqxmd.com/read/28706318/diversity-of-root-knot-nematodes-associated-with-tubers-of-yam-dioscorea-spp-established-using-isozyme-analysis-and-mitochondrial-dna-based-identification
#16
Yao A Kolombia, Gerrit Karssen, Nicole Viaene, P Lava Kumar, Nancy de Sutter, Lisa Joos, Danny L Coyne, Wim Bert
The root-knot nematodes (RKN), Meloidogyne spp., represent an important threat to yam (Dioscorea spp.) production in West Africa. With the aim to establish the diversity of RKN species affecting yam tubers, for control and resistance screening purposes, surveys were conducted in the main yam producing areas of Nigeria. Galled tubers (N = 48) were collected from farmers' stores and markets in nine states in Nigeria and in one district in Ghana. RKN isolated from yam tubers were identified using enzyme phenotyping (esterase and malate dehydrogenase) and mitochondrial DNA (mtDNA) NADH dehydrogenase subunit 5 (Nad5) barcoding...
June 2017: Journal of Nematology
https://www.readbyqxmd.com/read/28705933/two-functionally-distinct-nadp-dependent-ferredoxin-oxidoreductases-maintain-the-primary-redox-balance-of-pyrococcus-furiosus
#17
Diep M N Nguyen, Gerrit J Schut, Oleg A Zadvornyy, Monika Tokmina-Lukaszewska, Saroj Poudel, Gina L Lipscomb, Leslie A Adams, Jessica T Dinsmore, William J Nixon, Eric S Boyd, Brian Bothner, John W Peters, Michael W W Adams
Electron bifurcation has recently gained acceptance as the third mechanism of energy conservation in which energy is conserved through the coupling of exergonic and endergonic reactions. A structure-based mechanism of bifurcation has been elucidated recently for the flavin-based enzyme NADH-dependent ferredoxin NADP+ oxidoreductase I (NfnI) from the hyperthermophillic archaeon Pyrococcus furiosus. NfnI is thought to be involved in maintaining the cellular redox balance, producing NADPH for biosynthesis by recycling the two other primary redox carriers, NADH and ferredoxin...
July 13, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28704703/early-axis-growth-during-seed-germination-is-gravitropic-and-mediated-by-ros-and-calcium
#18
Khangembam Lenin Singh, Anindita Mukherjee, Rup Kumar Kar
In plant establishment, seed germination is characterized by the emergence of a radicle for secured anchorage to the soil and nutrient and water uptake. Early growth of germinating axes appears to be gravisensitive, and the regulation of this process is largely uncharacterized, particularly in case of epigeally germinating species. Our previous work on the germination of Vigna radiata seeds demonstrated the role of apoplastic reactive oxygen species (ROS) in germination-associated axis growth. This study attempts to explore a possibly similar role of ROS in the gravitropic bending of germinating axes...
July 4, 2017: Journal of Plant Physiology
https://www.readbyqxmd.com/read/28704608/the-electron-bifurcating-fixabcx-protein-complex-from-azotobacter-vinelandii-generation-of-low-potential-reducing-equivalents-for-nitrogenase-catalysis
#19
Rhesa Ledbetter, Amaya M Garcia-Costas, Carolyn E Lubner, David W Mulder, Monika Tokmina-Lukaszewska, Jacob H Artz, Angela Patterson, Timothy Magnuson, Zackary J Jay, H Diessel Duan, Jacquelyn Miller, Mary H Plunkett, John P Hoben, Brett M Barney, Ross P Carlson, Anne-Frances Miller, Brian Bothner, Paul W King, John W Peters, Lance C Seefeldt
The biological reduction of dinitrogen (N2) to ammonia (NH3) by nitrogenase is an energetically demanding reaction that requires low-potential electrons and ATP; however, pathways used to deliver the electrons from central metabolism to the reductants of nitrogenase, ferredoxin or flavodoxin, remain unknown for many diazotrophic microbes. The FixABCX protein complex has been proposed to reduce flavodoxin or ferredoxin using NADH as the electron donor in a process known as electron bifurcation. Herein, the FixABCX complex from Azotobacter vinelandii was purified and demonstrated to catalyze an electron bifurcation reaction: oxidation of NADH (Em= -320 mV) coupled to reduction of flavodoxin semiquinone (Em= -460 mV) and reduction of coenzyme Q (Em= +10 mV)...
July 13, 2017: Biochemistry
https://www.readbyqxmd.com/read/28701960/role-of-mitochondrial-reverse-electron-transport-in-ros-signaling-potential-roles-in-health-and-disease
#20
REVIEW
Filippo Scialò, Daniel J Fernández-Ayala, Alberto Sanz
Reactive Oxygen Species (ROS) can cause oxidative damage and have been proposed to be the main cause of aging and age-related diseases including cancer, diabetes and Parkinson's disease. Accordingly, mitochondria from old individuals have higher levels of ROS. However, ROS also participate in cellular signaling, are instrumental for several physiological processes and boosting ROS levels in model organisms extends lifespan. The current consensus is that low levels of ROS are beneficial, facilitating adaptation to stress via signaling, whereas high levels of ROS are deleterious because they trigger oxidative stress...
2017: Frontiers in Physiology
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