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https://www.readbyqxmd.com/read/29778689/network-analysis-of-a-proposed-exit-pathway-for-protons-to-the-p-side-of-cytochrome-c-oxidase
#1
Xiuhong Cai, Kamran Haider, Jianxun Lu, Slaven Radic, Chang Yun Son, Qiang Cui, M R Gunner
Cytochrome c Oxidase (CcO) reduces O2 , the terminal electron acceptor, to water in the aerobic respiration electron transport chain. The energy released by O2 reductions is stored by removing eight protons from the high pH, N-side, of the membrane with four used for chemistry in the active site and four pumped to the low pH, P-side. The proton transfers must occur along controllable proton pathways that prevent energy dissipating movement towards the N-side. The CcO N-side has well established D- and K-channels to deliver protons to the protein interior...
May 17, 2018: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/29763662/mt-rps3-is-an-ancient-gene-which-provides-insight-into-the-evolution-of-fungal-mitochondrial-genomes
#2
Artemis G Korovesi, Maria Ntertilis, Vassili N Kouvelis
The nuclear ribosomal protein S3 (Rps3) is implicated in the assembly of the ribosomal small subunit. Fungi and plants present a gene copy in their mitochondrial (mt) genomes. An analysis of 303 complete fungal mt genomes showed that, when rps3 is found, it is either a free-standing gene or an anchored gene within the omega intron of the rnl gene. Early divergent fungi, Basidiomycota and all yeasts but the CTG group belong to the first case, and Pezizomycotina to the second. Its position, size and genetic code employed are conserved within species of the same Order...
May 12, 2018: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/29761172/loss-of-hypoxia-inducible-factor-1%C3%AE-aggravates-%C3%AE-%C3%AE-t-cell-mediated-inflammation-during-acetaminophen-induced-liver-injury
#3
Tomohiro Suzuki, Shoko Minagawa, Takashi Yamazaki, Takatomo Arai, Mai Kanai, Satoko Shinjo, Nobuhito Goda
Acetaminophen (APAP)-induced liver injury is closely associated with acute hepatic inflammation. Hypoxia-inducible factor-1 (HIF-1) is activated during immunological processes and regulates gene expressions in various types of immune cells. Although HIF-1 controls the differentiation and functions of conventional T cells in chronic inflammation, the pathological importance of HIF-1 in innate-like T cells during acute inflammation remains unknown. Here, we investigated the role of HIF-1 in innate-like γδ T cells during APAP-induced acute liver injury...
May 2018: Hepatology Communications
https://www.readbyqxmd.com/read/29757366/a-systematic-review-and-meta-analysis-reveals-pervasive-effects-of-germline-mitochondrial-replacement-on-components-of-health
#4
Ralph Dobler, Damian K Dowling, Edward H Morrow, Klaus Reinhardt
BACKGROUND: Mitochondrial replacement, a form of nuclear transfer, has been proposed as a germline therapy to prevent the transmission of mitochondrial diseases. Mitochondrial replacement therapy has been licensed for clinical application in the UK, and already carried out in other countries, but little is known about negative or unintended effects on the health of offspring born using this technique. OBJECTIVE AND RATIONALE: Studies in invertebrate models have used techniques that achieve mitochondrial replacement to create offspring with novel combinations of mitochondrial and nuclear genotype...
May 11, 2018: Human Reproduction Update
https://www.readbyqxmd.com/read/29753892/next-generation-sequencing-reveals-packaging-of-host-rnas-by-brome-mosaic-virus
#5
N Shrestha, P H Weber, S V Burke, W Wysocki, M R Duvall, J J Bujarski
Although RNA viruses evolved the mechanisms of specific encapsidation, miss-packaging of cellular RNAs has been reported in such RNA virus systems as flock house virus or cucumber necrosis virus. To find out if brome mosaic virus (BMV), a tripartite RNA virus, can package cellular RNAs, BMV was propagated in barley and in Nicotiana benthamiana hosts, purified by cesium chloride (CsCl) gradient ultracentrifugation followed by nuclease treatment to remove any contaminating cellular (host) RNAs. The extracted virion RNA was then sequenced by using next-generation sequencing (NGS RNA-Seq) with the Illumina protocol...
May 10, 2018: Virus Research
https://www.readbyqxmd.com/read/29753599/carbon-monoxide-poisoning-in-a-young-healthy-patient-a-case-study-of-heart-failure-recovery-after-hyperbaric-oxygenation-treatment
#6
Michael Kuniavsky, Yair Bechor, Marina Leitman, Shai Efrati
The effectiveness of hyperbaric oxygen treatment for acute cardiac diseases is unknown. Similarly, the effectiveness of hyperbaric oxygen treatment for carbon monoxide intoxication is also unknown, particularly for cases in which carboxyhemoglobin (COHb) levels return to normal. Our case study revolved around a healthy twenty-year-old male patient, who suffered from carbon monoxide intoxication. The patient presented to the Emergency Department unconscious. Blood workup revealed significant carbon monoxide intoxication and cardiac injury (COHb = 41%, troponin T = 0...
May 9, 2018: Intensive & Critical Care Nursing: the Official Journal of the British Association of Critical Care Nurses
https://www.readbyqxmd.com/read/29752988/the-complete-mitochondrial-genome-of-parasesarma-pictum-brachyura-grapsoidea-sesarmidae-and-comparison-with-other-brachyuran-crabs
#7
Zhengfei Wang, Xuejia Shi, Yitao Tao, Qiong Wu, Yuze Bai, Huayun Guo, Dan Tang
Mitochondrial DNA (mtDNA) is an extrachromosomal genome which can provide important information for evolution and phylogenetic analysis. In this study, we assembled a complete mitogenome of a crab Parasesarma pictum (Brachyura: Grapsoidea: Sesarmidae) from next generation sequencing reads at the first time. P. pictum is a mudflat crab, belonging to the Sesarmidae family (subfamily Sesarminae), which is perched on East Asia. The 15,716 bp mitogenome covers 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), 2 ribosomal RNA genes (rRNAs), and one control region (CR)...
May 9, 2018: Genomics
https://www.readbyqxmd.com/read/29750205/more-than-a-powerplant-the-influence-of-mitochondrial-transfer-on-the-epigenome
#8
Alexander N Patananan, Alexander J Sercel, Michael A Teitell
Each cell in the human body, with the exception of red blood cells, contains multiple copies of mitochondria that house their own genetic material, the maternally inherited mitochondrial DNA. Mitochondria are the cell's powerplant due to their massive ATP generation. However, the mitochondrion is also a hub for metabolite production from the TCA cycle, fatty acid beta-oxidation, and ketogenesis. In addition to producing macromolecules for biosynthetic reactions and cell replication, several mitochondrial intermediate metabolites serve as cofactors or substrates for epigenome modifying enzymes that regulate chromatin structure and impact gene expression...
June 2018: Current Opinion in Physiology
https://www.readbyqxmd.com/read/29748134/oxysterol-binding-protein-related-proteins-orps-5-and-8-regulate-calcium-signaling-at-specific-cell-compartments
#9
Ilari Pulli, Taru Lassila, Guoping Pan, Daoguang Yan, Vesa M Olkkonen, Kid Törnquist
Oxysterol-binding protein related-protein 5 and 8 (ORP5/8) localize to the membrane contact sites (MCS) of the endoplasmic reticulum (ER) and the mitochondria, as well as to the ER-plasma membrane (PM) MCS. The MCS are emerging as important regulators of cell signaling events, including calcium (Ca2+ ) signaling. ORP5/8 have been shown to interact with phosphatidylinositol-4,5-bisphosphate (PIP2 ) in the PM, and to modulate mitochondrial respiration and morphology. PIP2 is the direct precursor of inositol trisphosphate (IP3 ), a key second messenger responsible for Ca2+ -release from the intracellular Ca2+ stores...
March 13, 2018: Cell Calcium
https://www.readbyqxmd.com/read/29746243/steps-toward-understanding-mitochondrial-fe-s-cluster-biogenesis
#10
Andrew Melber, Dennis R Winge
Iron-sulfur clusters (Fe/S clusters) are essential cofactors required throughout the clades of biology for performing a myriad of unique functions including nitrogen fixation, ribosome assembly, DNA repair, mitochondrial respiration, and metabolite catabolism. Although Fe/S clusters can be synthesized in vitro and transferred to a client protein without enzymatic assistance, biology has evolved intricate mechanisms to assemble and transfer Fe/S clusters within the cellular environment. In eukaryotes, the foundation of all cellular clusters starts within the mitochondria...
2018: Methods in Enzymology
https://www.readbyqxmd.com/read/29742407/mechanism-of-long-chain-free-fatty-acid-protonation-at-the-membrane-water-interface
#11
Alina A Pashkovskaya, Mario Vazdar, Lars Zimmermann, Olga Jovanovic, Peter Pohl, Elena E Pohl
Long-chain free fatty acids (FFAs) play an important role in several physiological and pathological processes such as lipid fusion, adjustments of membrane permeability and fluidity, and the regulation of enzyme and protein activities. FFA-facilitated membrane proton transport (flip-flop) and FFA-dependent proton transport by membrane proteins (e.g., mitochondrial uncoupling proteins) are governed by the difference between FFA's intrinsic pKa value and the pH in the immediate membrane vicinity. Thus far, a quantitative understanding of the process has been hampered, because the pKa value shifts upon moving the FFA from the aqueous solution into the membrane...
May 8, 2018: Biophysical Journal
https://www.readbyqxmd.com/read/29740154/additional-mitochondrial-dna-influences-the-interactions-between-the-nuclear-and-mitochondrial-genomes-in-a-bovine-embryo-model-of-nuclear-transfer
#12
Kanokwan Srirattana, Justin C St John
We generated cattle embryos using mitochondrial supplementation and somatic cell nuclear transfer (SCNT), named miNT, to determine how additional mitochondrial DNA (mtDNA) modulates the nuclear genome. To eliminate any confounding effects from somatic cell mtDNA in intraspecies SCNT, donor cell mtDNA was depleted prior to embryo production. Additional oocyte mtDNA did not affect embryo development rates but increased mtDNA copy number in blastocyst stage embryos. Moreover, miNT-derived blastocysts had different gene expression profiles when compared with SCNT-derived blastocysts...
May 8, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29735700/pan-cancer-transcriptional-signatures-predictive-of-oncogenic-mutations-reveal-that-fbw7-regulates-cancer-cell-oxidative-metabolism
#13
Ryan J Davis, Mehmet Gönen, Daciana H Margineantu, Shlomo Handeli, Jherek Swanger, Pia Hoellerbauer, Patrick J Paddison, Haiwei Gu, Daniel Raftery, Jonathan E Grim, David M Hockenbery, Adam A Margolin, Bruce E Clurman
The Fbw7 (F-box/WD repeat-containing protein 7) ubiquitin ligase targets multiple oncoproteins for degradation and is commonly mutated in cancers. Like other pleiotropic tumor suppressors, Fbw7's complex biology has impeded our understanding of how Fbw7 mutations promote tumorigenesis and hindered the development of targeted therapies. To address these needs, we employed a transfer learning approach to derive gene-expression signatures from The Cancer Gene Atlas datasets that predict Fbw7 mutational status across tumor types and identified the pathways enriched within these signatures...
May 7, 2018: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29732501/pkm2-dependent-metabolic-reprogramming-in-cd4-t-cells-is-crucial-for-hyperhomocysteinemia-accelerated-atherosclerosis
#14
Silin Lü, Jiacheng Deng, Huiying Liu, Bo Liu, Juan Yang, Yutong Miao, Jing Li, Nan Wang, Changtao Jiang, Qingbo Xu, Xian Wang, Juan Feng
Inflammation mediated by activated T cells plays an important role in the initiation and progression of hyperhomocysteinemia (HHcy)-accelerated atherosclerosis in ApoE-/- mice. Homocysteine (Hcy) activates T cells to secrete proinflammatory cytokines, especially interferon (IFN)-γ; however, the precise mechanisms remain unclear. Metabolic reprogramming is critical for T cell inflammatory activation and effector functions. Our previous study demonstrated that Hcy regulates T cell mitochondrial reprogramming by enhancing endoplasmic reticulum (ER)-mitochondria coupling...
May 7, 2018: Journal of Molecular Medicine: Official Organ of the "Gesellschaft Deutscher Naturforscher und Ärzte"
https://www.readbyqxmd.com/read/29731306/absence-of-complex-i-implicates-rearrangement-of-the-respiratory-chain-in-european-mistletoe
#15
Jennifer Senkler, Nils Rugen, Holger Eubel, Jan Hegermann, Hans-Peter Braun
The mitochondrial oxidative phosphorylation (OXPHOS) system, which is based on the presence of five protein complexes, is in the very center of cellular ATP production. Complexes I to IV are components of the respiratory electron transport chain that drives proton translocation across the inner mitochondrial membrane. The resulting proton gradient is used by complex V (the ATP synthase complex) for the phosphorylation of ADP. Occurrence of complexes I to V is highly conserved in eukaryotes, with exceptions being restricted to unicellular parasites that take up energy-rich compounds from their hosts...
April 27, 2018: Current Biology: CB
https://www.readbyqxmd.com/read/29727614/3d-super-resolution-microscopy-reflects-mitochondrial-cristae-alternations-and-mtdna-nucleoid-size-and-distribution
#16
Andrea Dlasková, Hana Engstová, Tomáš Špaček, Anežka Kahancová, Vojtěch Pavluch, Katarína Smolková, Jitka Špačková, Martin Bartoš, Lydie Plecitá Hlavatá, Petr Ježek
3D super-resolution microscopy based on the direct stochastic optical reconstruction microscopy (dSTORM) with primary Alexa-Fluor-647-conjugated antibodies is a powerful method for accessing changes of objects that could be normally resolved only by electron microscopy. Despite the fact that mitochondrial cristae yet to become resolved, we have indicated changes in cristae width and/or morphology by dSTORM of ATP-synthase F1 subunit α (F1 α). Obtained 3D images were analyzed with the help of Ripley's K-function modeling spatial patterns or transferring them into distance distribution function...
May 1, 2018: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/29718506/complete-mitochondrial-genome-of-dinorhynchus-dybowskyi-hemiptera-pentatomidae-asopinae-and-phylogenetic-analysis-of-pentatomomorpha-species
#17
Qing Zhao, Juan Wang, Meng-Qing Wang, Bo Cai, Hu-Fang Zhang, Jiu-Feng Wei
Dinorhynchus dybowskyi (Hemiptera: Pentatomidae: Asopinae) is used as a biological control agent against various insect pests for its predatory. In the present study, the complete mitochondrial genome (mitogenome) of the species was sequenced using the next-generation sequencing technology. The results showed that the mitogenome is 15,952 bp long, including 13 protein-coding genes (PCGs), 22 transfer RNAs (tRNAs), two ribosomal RNAs (rRNAs), and a control region. Furthermore, the gene order and orientation of this mitogenome are identical to those of most heteropterans...
March 1, 2018: Journal of Insect Science
https://www.readbyqxmd.com/read/29718503/the-complete-mitochondrial-genome-of-the-plant-bug-lygus-pratensis-linnaeus-hemiptera-miridae
#18
Yao Tan, Bing Jia, Yuan-Ming Chi, Hai-Bin Han, Xiao-Rong Zhou, Bao-Ping Pang
Lygus pratensis is a phytophagous pest responsible for yield losses in Bt alfalfa and other economic crops in Northwestern China. To better characterize Miridae at the genomic level, the complete mitochondrial (mt) genome of L. pratensis was sequenced and analyzed in this study. The mt genome was amplified via the polymerase chain reaction to generate overlapping fragments. These fragments were then sequenced, spliced, and analyzed to include the examination of nucleotide composition, codon usage, compositional biases, protein-coding genes (PCGs), and RNA secondary structures...
March 1, 2018: Journal of Insect Science
https://www.readbyqxmd.com/read/29718488/the-complete-mitochondrial-genome-of-coptotermes-suzhouensis-syn-coptotermes-formosanus-isoptera-rhinotermitidae-and-molecular-phylogeny-analysis
#19
Juan Li, Jin-Long Zhu, Shi-di Lou, Ping Wang, You-Sen Zhang, Lin Wang, Ruo-Chun Yin, Ping-Ping Zhang
Coptotermes suzhouensis (Isoptera: Rhinotermitidae) is a significant subterranean termite pest of wooden structures and is widely distributed in southeastern China. The complete mitochondrial DNA sequence of C. suzhouensis was analyzed in this study. The mitogenome was a circular molecule of 15,764 bp in length, which contained 13 protein-coding genes (PCGs), 22 transfer RNA genes, two ribosomal RNA genes, and an A+T-rich region with a gene arrangement typical of Isoptera mitogenomes. All PCGs were initiated by ATN codons and terminated by complete termination codons (TAA), except COX2, ND5, and Cytb, which ended with an incomplete termination codon T...
March 1, 2018: Journal of Insect Science
https://www.readbyqxmd.com/read/29718483/the-complete-mitochondrial-genome-of-the-longhorn-beetle-dorysthenes-paradoxus-coleoptera-cerambycidae-prionini-and-the-implication-for-the-phylogenetic-relationships-of-the-cerambycidae-species
#20
Yan-Qun Liu, Dong-Bin Chen, Huan-Huan Liu, Hua-Lei Hu, Hai-Xu Bian, Ru-Song Zhang, Rui-Sheng Yang, Xing-Fu Jiang, Sheng-Lin Shi
The longhorn beetle Dorysthenes paradoxus (Faldermann, 1833) (Coleoptera: Cerambycidae) is not only a serious agricultural pest but also a traditionally edible insect in China. However, no genetic information on this species has been acquired. In the present study, we report the mitochondrial genome (mitogenome) of Do. paradoxus, as the first complete mitogenome of Prioninae. The circular mitogenome of 15,922 bp encodes 13 protein-coding genes (PCGs), 22 transfer RNAs (tRNAs), and two ribosomal RNAs (rRNAs), and it contains an A+T-rich region...
March 1, 2018: Journal of Insect Science
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