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Mitochondria DNA

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https://www.readbyqxmd.com/read/28742928/shotgun-mitogenomics-across-body-size-classes-in-a-local-assemblage-of-tropical-diptera-phylogeny-species-diversity-and-mitochondrial-abundance-spectrum
#1
Le Qin Choo, Alex Crampton-Platt, Alfried P Vogler
Mitochondrial genomes can be assembled readily from shotgun sequenced DNA mixtures of mass-trapped arthropods ('mitochondrial metagenomics'), speeding up the taxonomic characterization. Bulk sequencing was conducted on some 800 individuals of Diptera obtained by canopy-fogging of a single tree in Borneo dominated by small (<1.5 mm) individuals. Specimens were split into five body-size classes for DNA extraction, to equalize read numbers across specimens and to study how body size, a key ecological trait, interacts with species and phylogenetic diversity...
July 25, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28740380/inhibition-of-cell-proliferation-through-an-atp-responsive-co-delivery-system-of-doxorubicin-and-bcl-2-sirna
#2
Jianxu Zhang, Yudi Wang, Jiawen Chen, Xiao Liang, Haobo Han, Yan Yang, Quanshun Li, Yanbo Wang
Herein, DNA duplex was constructed through the hybridization of adenosine triphosphate (ATP)-responsive aptamer and its cDNA in which GC-rich motif could be used to load doxorubicin (DOX), and then, cationic polymer PEI25K was used as a carrier to simultaneously condense DOX-Duplex and Bcl-2 siRNA to prepare the ternary nanocomplex polyethylenimine (PEI)/DOX-Duplex/siRNA. The ATP concentration gradient between the cytosol and extracellular environment could achieve the stable loading of DOX in duplex and the rapid drug release in an ATP-responsive manner...
2017: International Journal of Nanomedicine
https://www.readbyqxmd.com/read/28737709/regulation-and-modulation-of-human-dna-polymerase-%C3%AE-activity-and-function
#3
REVIEW
Marietta Y W T Lee, Xiaoxiao Wang, Sufang Zhang, Zhongtao Zhang, Ernest Y C Lee
This review focuses on the regulation and modulation of human DNA polymerase δ (Pol δ). The emphasis is on the mechanisms that regulate the activity and properties of Pol δ in DNA repair and replication. The areas covered are the degradation of the p12 subunit of Pol δ, which converts it from a heterotetramer (Pol δ4) to a heterotrimer (Pol δ3), in response to DNA damage and also during the cell cycle. The biochemical mechanisms that lead to degradation of p12 are reviewed, as well as the properties of Pol δ4 and Pol δ3 that provide insights into their functions in DNA replication and repair...
July 24, 2017: Genes
https://www.readbyqxmd.com/read/28734953/estimating-relative-mitochondrial-dna-copy-number-using-high-throughput-sequencing-data
#4
Pan Zhang, Brian D Lehmann, David C Samuels, Shilin Zhao, Ying-Yong Zhao, Yu Shyr, Yan Guo
We hypothesize that the relative mitochondria copy number (MTCN) can be estimated by comparing the abundance of mitochondrial DNA to nuclear DNA reads using high throughput sequencing data. To test this hypothesis, we examined relative MTCN across 13 breast cancer cell lines using the RT-PCR based NovaQUANT Human Mitochondrial to Nuclear DNA Ratio Kit as the gold standard. Six distinct computational approaches were used to estimate the relative MTCN in order to compare to the RT-PCR measurements. The results demonstrate that relative MTCN correlates well with the RT-PCR measurements using exome sequencing data, but not RNA-seq data...
July 19, 2017: Genomics
https://www.readbyqxmd.com/read/28733329/the-antifungal-activity-of-the-peptide-periplanetasin-2-derived-from-american-cockroach-periplaneta-americana
#5
JiEun Yun, Jae-Sam Hwang, Dong Gun Lee
The cockroach, which is a household insect, is an established model organism in research. Periplanetasin-2, derived from the American cockroach Periplaneta americana, exerted potent antifungal effect against pathogenic fungi without causing hemolysis. Periplanetasin-2 induced oxidative stress by generation of reactive oxygen species (ROS) and lipid peroxidation. Periplanetasin-2 also caused apoptosis by exposure of phosphatidylserine and fragmentation of DNA, exerted in a concentration-dependent manner. Hence, we investigated the mitochondrial apoptotic mechanism of periplanetasin-2 in Candida albicans After treatment with periplanetasin-2, we observed mitochondrial depolarization and calcium accumulation...
July 21, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28732061/melatonin-pre-treatment-mitigates-shsy-5y-cells-against-oxaliplatin-induced-mitochondrial-stress-and-apoptotic-cell-death
#6
Mohammad Waseem, Upasana Sahu, Mohd Salman, Arnab Choudhury, Sudeshna Kar, Heena Tabassum, Suhel Parvez
Oxaliplatin (Oxa) treatment to SH-SY5Y human neuroblastoma cells has been shown by previous studies to induce oxidative stress, which in turn modulates intracellular signaling cascades resulting in cell death. While this phenomenon of Oxa-induced neurotoxicity is known, the underlying mechanisms involved in this cell death cascade must be clarified. Moreover, there is still little known regarding the roles of neuronal mitochondria and cytosolic compartments in mediating Oxa-induced neurotoxicity. With a better grasp of the mechanisms driving neurotoxicity in Oxa-treated SH-SY5Y cells, we can then identify certain pathways to target in protecting against neurotoxic cell damage...
2017: PloS One
https://www.readbyqxmd.com/read/28731097/dba-induced-caspase-3-dependent-apoptosis-occurs-through-mitochondrial-translocation-of-cyt-c-in-the-rat-hippocampus
#7
Wenbo Jiang, Yingying Chen, Bai Li, Shuying Gao
Dibromoacetic acid (DBA), a by-product of disinfection, develops in drinking water during chlorination or ozonation processes. Water intake is the main source of DBA exposure in humans, which is potentially neurotoxic. The present study investigated the neurotoxic effects of DBA by assessing the behavioral and biochemical characteristics of Sprague Dawley rats intragastrically treated with DBA at concentrations of 20, 50 and 125 mg kg(-1) body weight for 28 consecutive days. The results indicated that animal weight gain and food consumption were not significantly affected by DBA...
July 21, 2017: Molecular BioSystems
https://www.readbyqxmd.com/read/28729291/stimulator-of-ifn-genes-mediated-dna-sensing-pathway-is-suppressed-by-nlrp3-agonists-and-regulated-by-mitofusin-1-and-tbc1d15-mitochondria-dynamics-mediators
#8
Dohyeong Kwon, Eunbyeol Park, Suk-Jo Kang
The stimulator of IFN genes (STING)-mediated DNA-sensing pathway plays an important role in the innate immune response to pathogen infection, autoimmunity, and cancer; however, its regulatory mechanism has not been fully elucidated, and we do not yet know whether the STING pathway is counter-regulated by other innate immune pathways. Here, we show that the NLRP3-activating agonists, ATP and nigericin, prevent STING pathway activation in association with mitochondrial fragmentation; however, the suppression of the STING pathway and mitochondria fission were not dependent on NLRP3 or potassium efflux...
July 20, 2017: FASEB Journal: Official Publication of the Federation of American Societies for Experimental Biology
https://www.readbyqxmd.com/read/28725363/bridging-two-scholarly-islands-enriches-both-coi-dna-barcodes-for-species-identification-versus-human-mitochondrial-variation-for-the-study-of-migrations-and-pathologies
#9
David S Thaler, Mark Y Stoeckle
DNA barcodes for species identification and the analysis of human mitochondrial variation have developed as independent fields even though both are based on sequences from animal mitochondria. This study finds questions within each field that can be addressed by reference to the other. DNA barcodes are based on a 648-bp segment of the mitochondrially encoded cytochrome oxidase I. From most species, this segment is the only sequence available. It is impossible to know whether it fairly represents overall mitochondrial variation...
October 2016: Ecology and Evolution
https://www.readbyqxmd.com/read/28721182/mitochondria-in-oocyte-aging-current-understanding
#10
REVIEW
D Zhang, D Keilty, Z F Zhang, R C Chian
The oocyte is the largest cell found in multicellular organisms. Mitochondria, as the energy factories for cells, are found in high numbers in oocytes, as they provide the energy for oocyte maturation, fertilization, and embryo formation via oxidative phosphorylation. Failure of assisted reproduction is mainly attributed to oocyte aging and increased aneuploidy. As the most numerous organelle in the oocyte, the mitochondrion has been confirmed as a crucial player in the process of oocyte aging, which is highly influenced by mitochondrion dysfunction...
March 2017: Facts, Views & Vision in ObGyn
https://www.readbyqxmd.com/read/28720726/mitochondrial-cochaperone-mge1-is-involved-in-regulating-susceptibility-to-fluconazole-in-saccharomyces-cerevisiae-and-candida-species
#11
Liesbeth Demuyser, Erwin Swinnen, Alessandro Fiori, Beatriz Herrera-Malaver, Kevin Vestrepen, Patrick Van Dijck
MGE1 encodes a yeast chaperone involved in Fe-S cluster metabolism and protein import into the mitochondria. In this study, we identified MGE1 as a multicopy suppressor of susceptibility to the antifungal fluconazole in the model yeast Saccharomyces cerevisiae We demonstrate that this phenomenon is not exclusively dependent on the integrity of the mitochondrial DNA or on the presence of the drug efflux pump Pdr5. Instead, we show that the increased dosage of Mge1 plays a protective role by retaining increased amounts of ergosterol upon fluconazole treatment...
July 18, 2017: MBio
https://www.readbyqxmd.com/read/28719835/silencing-the-tobacco-gene-for-rna-dependent-rna-polymerase-1-and-infection-by-potato-virus-y-cause-remodeling-of-cellular-organelles
#12
Farshad Rakhshandehroo, Saeed Rezaee, Peter Palukaitis
RNA-dependent RNA polymerase 1 (RDR1) has been shown to be involved in DNA methylation, RNA silencing and regulating expression of other genes. RDR1 gene expression is stimulated by infection with potato virus Y° (PVY). Transgenic Nicotiana tabacum plants silenced for RDR1 gene expression showed morphological changes in mesophyll cells, associated with remodeling of the nuclei, chloroplasts and mitochondria. RDR1 silencing led to decreased nuclear size, increased heterochromatin content and aggregation, decreased numbers of chloroplasts, plus changes in shape, internal structures and integrity of chloroplasts and mitochondria...
July 15, 2017: Virology
https://www.readbyqxmd.com/read/28719075/fibrosis-in-small-syngeneic-rat-liver-grafts-due-to-damaged-bone-marrow-stem-cells-from-chronic-alcohol-consumption
#13
Masayuki Hisada, Xiuying Zhang, Yoshihiro Ota, Andrew M Cameron, James Burdick, Bin Gao, George Melville Williams, Zhaoli Sun
A patient with liver failure due to chronic and acute alcohol abuse under consideration for an urgent liver transplant shortly after stopping alcohol may have residual abnormalities that threaten transplant success, particularly for a small graft. To address this, we studied a model in which reduced size (50%) Lewis rat livers are transplanted into green fluorescence protein (GFP) transgenic Lewis recipients after they are fed alcohol or a control diet for 5 weeks. Here we show that normal small Lewis grafts transplanted to alcohol fed Lewis hosts developed fibrosis whereas no fibrosis was observed in control fed recipients...
July 18, 2017: Liver Transplantation
https://www.readbyqxmd.com/read/28718810/dna2-an-important-player-in-dna-damage-response-or-just-another-dna-maintenance-protein
#14
REVIEW
Elzbieta Pawłowska, Joanna Szczepanska, Janusz Blasiak
The human DNA2 (DNA replication helicase/nuclease 2) protein is expressed in both the nucleus and mitochondria, where it displays ATPase-dependent nuclease and helicase activities. DNA2 plays an important role in the removing of long flaps in DNA replication and long-patch base excision repair (LP-BER), interacting with the replication protein A (RPA) and the flap endonuclease 1 (FEN1). DNA2 can promote the restart of arrested replication fork along with Werner syndrome ATP-dependent helicase (WRN) and Bloom syndrome protein (BLM)...
July 18, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28713989/effects-of-proton-beam-irradiation-on-mitochondrial-biogenesis-in-a-human-colorectal-adenocarcinoma-cell-line
#15
Byung Geun Ha, Sung Suk Jung, Yun Hee Shon
Proton beam therapy has recently been used to improve local control of tumor growth and reduce side-effects by decreasing the global dose to normal tissue. However, the regulatory mechanisms underlying the physiological role of proton beam radiation are not well understood, and many studies are still being conducted regarding these mechanisms. To determine the effects of proton beams on mitochondrial biogenesis, we investigated: mitochondrial DNA (mtDNA) mass; the gene expression of mitochondrial transcription factors, functional regulators, and dynamic-related regulators; and the phosphorylation of the signaling molecules that participate in mitochondrial biogenesis...
July 5, 2017: International Journal of Oncology
https://www.readbyqxmd.com/read/28711624/curcumin-attenuates-oxidative-stress-induced-nf%C3%AE%C2%BAb-mediated-inflammation-and-endoplasmic-reticulum-dependent-apoptosis-of-splenocytes-in-diabetes
#16
Kahkashan Rashid, Sayantani Chowdhury, Sumit Ghosh, Parames C Sil
The present study was aimed to determine the curative role of curcumin against diabetes induced oxidative stress and its associated splenic complications. Diabetes was induced in the experimental rats via the intraperitoneal administration of a single dose of STZ (65 mg kg(-1) body weight). Increased blood glucose and intracellular ROS levels along with decreased body weight, the activity of cellular antioxidant enzymes and GSH/GSSG ratio were observed in the diabetic animals. Histological assessment showed white pulp depletion and damaged spleen anatomy in these animals...
July 12, 2017: Biochemical Pharmacology
https://www.readbyqxmd.com/read/28710430/rlr-mediated-antiviral-innate-immunity-requires-oxidative-phosphorylation-activity
#17
Takuma Yoshizumi, Hiromi Imamura, Tomohiro Taku, Takahiro Kuroki, Atsushi Kawaguchi, Kaori Ishikawa, Kazuto Nakada, Takumi Koshiba
Mitochondria act as a platform for antiviral innate immunity, and the immune system depends on activation of the retinoic acid-inducible gene I (RIG-I)-like receptors (RLR) signaling pathway via an adaptor molecule, mitochondrial antiviral signaling. We report that RLR-mediated antiviral innate immunity requires oxidative phosphorylation (OXPHOS) activity, a prominent physiologic function of mitochondria. Cells lacking mitochondrial DNA or mutant cells with respiratory defects exhibited severely impaired virus-induced induction of interferons and proinflammatory cytokines...
July 14, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28710113/trap1-ameliorates-renal-tubulointerstitial-fibrosis-in-mice-with-unilateral-ureteral-obstruction-by-protecting-renal-tubular-epithelial-cell-mitochondria
#18
Jun-Feng Chen, Qi-Shun Wu, Yu-Xian Xie, Bo-Lin Si, Ping-Ping Yang, Wen-Yan Wang, Qin Hua, Qing He
Mitochondrial dysfunction causes renal tubular epithelial cell injury and promotes cell apoptosis and renal tubulointerstitial fibrosis (TIF) progression. TNF receptor-associated protein 1 (TRAP1) is a molecular chaperone protein that is localized in mitochondria. It plays an important role in cell apoptosis; however, its functional mechanism in TIF remains unclear. In this study, we observed the effects of TRAP1 in renal tubular epithelial cell mitochondria in mice with unilateral ureteral obstruction and its function in cell apoptosis and TIF...
July 14, 2017: FASEB Journal: Official Publication of the Federation of American Societies for Experimental Biology
https://www.readbyqxmd.com/read/28708512/insulin-during-in%C3%A2-vitro-oocyte-maturation-has-an-impact-on-development-mitochondria-and-cytoskeleton-in-bovine-day-8-blastocysts
#19
Denise Laskowski, Renée Båge, Patrice Humblot, Göran Andersson, Marc-André Sirard, Ylva Sjunnesson
Insulin is a key metabolic hormone that controls energy homeostasis in the body, including playing a specific role in regulating reproductive functions. Conditions associated with hyperinsulinemia can lower developmental rates in bovine in vitro embryo production and are linked to decreased fertility in humans, as in cases of obesity or type 2 diabetes. Embryo quality is important for fertility outcome and it can be assessed by choosing scoring standards for various characteristics, such as developmental stage, quality grade, cell number, mitochondrial pattern or actin cytoskeleton structure...
June 13, 2017: Theriogenology
https://www.readbyqxmd.com/read/28708239/novel-non-neutral-mitochondrial-dna-mutations-found-in-childhood-acute-lymphoblastic-leukemia
#20
Tekla Järviaho, Anri Hurme-Niiranen, Heidi K Soini, Riitta Niinimäki, Merja Möttönen, Eeva-Riitta Savolainen, Reetta Hinttala, Arja Harila-Saari, Johanna Uusimaa
Mitochondria produce adenosine triphosphate (ATP) for energy requirements via the mitochondrial oxidative phosphorylation (OXPHOS) system. One of the hallmarks of cancer is the energy shift towards glycolysis. Low OXPHOS activity and increased glycolysis are associated with aggressive types of cancer. Mitochondria have their own genome (mtDNA) encoding for 13 essential subunits of the OXPHOS enzyme complexes. We studied mtDNA in childhood acute lymphoblastic leukemia (ALL) to detect potential pathogenic mutations in OXPHOS complexes...
July 14, 2017: Clinical Genetics
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