The Biochemical Consequences of Hypoxia
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A Disease Spectrum for ITPA Variation: Advances in Biochemical and Clinical Research Nicholas E
Burgis Journal of Biomedical Science (2016) 23:73 DOI 10.1186/s12929-016-0291-y REVIEW Open Access A disease spectrum for ITPA variation: advances in biochemical and clinical research Nicholas E. Burgis Abstract Human ITPase (encoded by the ITPA gene) is a protective enzyme which acts to exclude noncanonical (deoxy) nucleoside triphosphates ((d)NTPs) such as (deoxy)inosine 5′-triphosphate ((d)ITP), from (d)NTP pools. Until the last few years, the importance of ITPase in human health and disease has been enigmatic. In 2009, an article was published demonstrating that ITPase deficiency in mice is lethal. All homozygous null offspring died before weaning as a result of cardiomyopathy due to a defect in the maintenance of quality ATP pools. More recently, a whole exome sequencing project revealed that very rare, severe human ITPA mutation results in early infantile encephalopathy and death. It has been estimated that nearly one third of the human population has an ITPA status which is associated with decreased ITPase activity. ITPA status has been linked to altered outcomes for patients undergoing thiopurine or ribavirin therapy. Thiopurine therapy can be toxic for patients with ITPA polymorphism, however, ITPA polymorphism is associated with improved outcomes for patients undergoing ribavirin treatment. ITPA polymorphism has also been linked to early-onset tuberculosis susceptibility. These data suggest a spectrum of ITPA-related disease exists in human populations. Potentially, ITPA status may affect a large number of patient outcomes, suggesting that modulation of ITPase activity is an important emerging avenue for reducing the number of negative outcomes for ITPA-related disease. -
Class 11 Biology Chapter- 13 Respiration in Plants
CLASS 11 BIOLOGY CHAPTER- 13 RESPIRATION IN PLANTS CELLULAR RESPIRATION: The process of conversion of the chemical energy of organic substances into a metabolically usable energy within living cells is called cellular respiration. TYPES OF CELLULAR RESPIRATION: (i) Aerobic respiration: The process of respiration which requires molecular oxygen. (ii) Anaerobic respiration: The process of respiration which does not require molecular oxygen and occurs in the cytoplasm. MECHANISM OF RESPIRATION: Following are the steps- 1. GLYCOLYSIS / EMP Pathway: It involves a series of closely integrated reactions in which hexose sugars(usually glucose) are converted into pyruvic acid. It is common in both aerobic and anaerobic reactions. It occurs in the cytoplasm. It does not require oxygen. Gollowing are the steps of GLYCLOLYSIS: (i) Conversion of glucose to Fructose-1,6-diphosphate: First phosphorylation: Glucose is converted to Glucose -6-phosphate in the presence of enzyme hexokinase and Mg++ ions and energy in the form of ATP. Isomerization: Glucose-6-phosphate is converted to Fructose-6-phosphate in the presence of phosphohexoisomerase. Second phosphorylation: Fructose-6-phosphate is converted to Fructose-1,6- diphosphate by the use of energy in the form of ATP. (ii) Formation of pyruvic acid from fructose -1,6-diphosphate: Cleavage: Fructose-1,6-diphosphate splits into 3-phosphoglyceraldehyde and Dihydroxyacetone phosphate in the presence of enzyme aldolase. Phosphorylation and oxidative dehydrogenase: 3-phosphoglyceraldehyde is converted to 1,3-biphosphoglyceric acid. ATP generation(first): 1,3-biphosphoglyceric acid is converted to 3-phosphoglyceric acid in the presence of Mg++ and phosphoglycerokinase . Isomerization: 3-phosphoglyceric acid is converted to 2-phosphoglyceric acid in the presence of Mg++. -
Inosine in Biology and Disease
G C A T T A C G G C A T genes Review Inosine in Biology and Disease Sundaramoorthy Srinivasan 1, Adrian Gabriel Torres 1 and Lluís Ribas de Pouplana 1,2,* 1 Institute for Research in Biomedicine, Barcelona Institute of Science and Technology, 08028 Barcelona, Catalonia, Spain; [email protected] (S.S.); [email protected] (A.G.T.) 2 Catalan Institution for Research and Advanced Studies, 08010 Barcelona, Catalonia, Spain * Correspondence: [email protected]; Tel.: +34-934034868; Fax: +34-934034870 Abstract: The nucleoside inosine plays an important role in purine biosynthesis, gene translation, and modulation of the fate of RNAs. The editing of adenosine to inosine is a widespread post- transcriptional modification in transfer RNAs (tRNAs) and messenger RNAs (mRNAs). At the wobble position of tRNA anticodons, inosine profoundly modifies codon recognition, while in mRNA, inosines can modify the sequence of the translated polypeptide or modulate the stability, localization, and splicing of transcripts. Inosine is also found in non-coding and exogenous RNAs, where it plays key structural and functional roles. In addition, molecular inosine is an important secondary metabolite in purine metabolism that also acts as a molecular messenger in cell signaling pathways. Here, we review the functional roles of inosine in biology and their connections to human health. Keywords: inosine; deamination; adenosine deaminase acting on RNAs; RNA modification; translation Citation: Srinivasan, S.; Torres, A.G.; Ribas de Pouplana, L. Inosine in 1. Introduction Biology and Disease. Genes 2021, 12, 600. https://doi.org/10.3390/ Inosine was one of the first nucleobase modifications discovered in nucleic acids, genes12040600 having been identified in 1965 as a component of the first sequenced transfer RNA (tRNA), tRNAAla [1]. -
Standard Abbreviations
Journal of CancerJCP Prevention Standard Abbreviations Journal of Cancer Prevention provides a list of standard abbreviations. Standard Abbreviations are defined as those that may be used without explanation (e.g., DNA). Abbreviations not on the Standard Abbreviations list should be spelled out at first mention in both the abstract and the text. Abbreviations should not be used in titles; however, running titles may carry abbreviations for brevity. ▌Abbreviations monophosphate ADP, dADP adenosine diphosphate, deoxyadenosine IR infrared diphosphate ITP, dITP inosine triphosphate, deoxyinosine AMP, dAMP adenosine monophosphate, deoxyadenosine triphosphate monophosphate LOH loss of heterozygosity ANOVA analysis of variance MDR multiple drug resistance AP-1 activator protein-1 MHC major histocompatibility complex ATP, dATP adenosine triphosphate, deoxyadenosine MRI magnetic resonance imaging trip hosphate mRNA messenger RNA bp base pair(s) MTS 3-(4,5-dimethylthiazol-2-yl)-5-(3- CDP, dCDP cytidine diphosphate, deoxycytidine diphosphate carboxymethoxyphenyl)-2-(4-sulfophenyl)- CMP, dCMP cytidine monophosphate, deoxycytidine mono- 2H-tetrazolium phosphate mTOR mammalian target of rapamycin CNBr cyanogen bromide MTT 3-(4,5-Dimethylthiazol-2-yl)-2,5- cDNA complementary DNA diphenyltetrazolium bromide CoA coenzyme A NAD, NADH nicotinamide adenine dinucleotide, reduced COOH a functional group consisting of a carbonyl and nicotinamide adenine dinucleotide a hydroxyl, which has the formula –C(=O)OH, NADP, NADPH nicotinamide adnine dinucleotide -
Antibiotics As a Feed Additive Promote Growth of Chickens by Modulating the Gut Microbiome
Antibiotics as a Feed Additive Promote Growth of Chickens by Modulating the Gut Microbiome Xiangkai Li ( [email protected] ) Lanzhou University https://orcid.org/0000-0002-5704-9791 Ying Wu Lanzhou University Liang Peng Lanzhou University Rong Han Lanzhou University pengya Feng Lanzhou University Aman Khan Lanzhou University Pu Liu Lanzhou University Research Keywords: Antibiotic, Gut microbiota, Metabonomic, Lipid and amid acid metabolism, Immune response Posted Date: June 7th, 2021 DOI: https://doi.org/10.21203/rs.3.rs-571302/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Page 1/31 Abstract Background: Antibiotics widely used as growth promoters in the agricultural industry, but their mechanisms have not been fully explored. Antibiotics has a connection effect on the gut microbiome which plays a vital role in host metabolism and immune response. Here, we investigated the association of antibiotic and gut microbiome in broiler chicken. Methods: Polymyxin (PMX) and amoxicillin (AMX) were selected as feed additives in broiler chicken, and gut bacterial composition assessed by quantitative real-time PCR and high-throughput sequencing of bacterial 16S rRNA. Metabolome and lipidomic of feces and serum samples were analyzed using liquid chromatograpy-tandem mass spectrometry (LC-MS). We further assessed changes in the microbiota and metabolism which underwent antibiotics treatment. Results: The administration of antibiotic increasing, the average weight of chickens by up to 4.9% and altered number and structure of the intestinal microora compared to the un-treated group. The bacterial component of gut microbiota in antibiotic groups was showed a lower prevalence of Firmicutes and Bacteroidetes phyla and higher prevalence of a high diversity (Proteobacteria). -
Epistasis-Driven Identification of SLC25A51 As a Regulator of Human
ARTICLE https://doi.org/10.1038/s41467-020-19871-x OPEN Epistasis-driven identification of SLC25A51 as a regulator of human mitochondrial NAD import Enrico Girardi 1, Gennaro Agrimi 2, Ulrich Goldmann 1, Giuseppe Fiume1, Sabrina Lindinger1, Vitaly Sedlyarov1, Ismet Srndic1, Bettina Gürtl1, Benedikt Agerer 1, Felix Kartnig1, Pasquale Scarcia 2, Maria Antonietta Di Noia2, Eva Liñeiro1, Manuele Rebsamen1, Tabea Wiedmer 1, Andreas Bergthaler1, ✉ Luigi Palmieri2,3 & Giulio Superti-Furga 1,4 1234567890():,; About a thousand genes in the human genome encode for membrane transporters. Among these, several solute carrier proteins (SLCs), representing the largest group of transporters, are still orphan and lack functional characterization. We reasoned that assessing genetic interactions among SLCs may be an efficient way to obtain functional information allowing their deorphanization. Here we describe a network of strong genetic interactions indicating a contribution to mitochondrial respiration and redox metabolism for SLC25A51/MCART1, an uncharacterized member of the SLC25 family of transporters. Through a combination of metabolomics, genomics and genetics approaches, we demonstrate a role for SLC25A51 as enabler of mitochondrial import of NAD, showcasing the potential of genetic interaction- driven functional gene deorphanization. 1 CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, Vienna, Austria. 2 Laboratory of Biochemistry and Molecular Biology, Department of Biosciences, Biotechnologies and Biopharmaceutics, -
Citric Acid Cycle
Lecture: 4 Biochemistry Anwar J Almzaiel Citric acid cycle Citric acid cycle (Krebs cycle, tricarboxylic acid cycle) is a series of reactions in mitochondria that bring about the catabolism of acetyl residues, liberating hydrogen equivalents, which upon oxidation lead to the release of most the energy of tissues fuels. The major function of cycle is to act as the final common pathway for oxidation of fatty acids, carbohydrates and proteins. It includes the electron transport system, the energy is produced in large amounts. Several of these processes are carried out in many tissues but the liver is the only tissue in which all occur to a significant extent, thus it is lethal when large numbers of hepatic cell are damaged or replaced by connective tissue, as in acute hepatitis and cirrhosis respectively. This cycle is found in the mitochondria. It starts with pyruvic acid which comes from cytoplasm to the mitochondria to be converted with coenzymes (NAD) and enzymes into acetyl COA + Pyruvic acid + COA +NAD Acetyl CoA +NADH+ CO2 The enzymes needed are found in the mitochondria close to the enzymes of the respiratory chain The oxidation of pyruvate to acetyl-CoA Before pyruvate can enter the citric acid cycle, it must be transported into the mitochondria via a special pyruvate transporter that aids its passage across the inner mitochondrial membrane. Within the mitochondria, pyruvate is oxdatively decarboxylated into acetyl COA. The conversion of pyruvic acid to acetyl COA involves 5 types of reaction and each reaction is catalysed by different enzyme system these enzymes act as a multi enzyme system (complex). -
High-Purity Rebaudioside D and Applications Hochreines Rebaudiosid-D Und Anwendungen Rébaudioside D De Grande Pureté Et Applications
(19) TZZ Z_T (11) EP 2 708 548 B1 (12) EUROPEAN PATENT SPECIFICATION (45) Date of publication and mention (51) Int Cl.: of the grant of the patent: C07H 1/08 (2006.01) A21D 2/36 (2006.01) 06.12.2017 Bulletin 2017/49 A23G 1/42 (2006.01) (21) Application number: 13196410.8 (22) Date of filing: 13.10.2010 (54) High-Purity Rebaudioside D and Applications Hochreines Rebaudiosid-D und Anwendungen Rébaudioside D de grande pureté et applications (84) Designated Contracting States: (72) Inventors: AL AT BE BG CH CY CZ DE DK EE ES FI FR GB • Abelyan, Varuzhan GR HR HU IE IS IT LI LT LU LV MC MK MT NL NO 50480 Kuala Lumpur (MY) PL PT RO RS SE SI SK SM TR • Markosyan, Avetik 59200 Kuala Lumpur (MY) (30) Priority: 15.10.2009 US 580233 • Abelyan, Lidia 24.05.2010 US 785501 50480 Kuala Lumpur (MY) 24.05.2010 US 785504 24.05.2010 US 785506 (74) Representative: Hocking, Adrian Niall et al 24.05.2010 US 785507 Albright IP Limited 24.05.2010 US 785508 County House 24.05.2010 US 786392 Bayshill Road 24.05.2010 US 786402 Cheltenham, Glos. GL50 3BA (GB) 24.05.2010 US 786413 24.05.2010 US 786416 (56) References cited: 24.05.2010 US 786427 WO-A1-2009/071277 24.05.2010 US 786430 24.05.2010 US 786419 • I. SAKAMOTO ET AL: "Application of 13C NMR spectroscopy to chemistry of natural glycosices: (43) Date of publication of application: rebaudioside-C,a newsweet diterpeneglycoside 19.03.2014 Bulletin 2014/12 of Stevia rebaudiana", CHEM. -
Utilization of L-Methionine and S-Adenosyl-L-Methionine for Methylation of Soluble RNA by Mouse Liver and Hepatoma Extracts1
[CANCER RESEARCH 27, 646-«S3,April 1967] Utilization of L-Methionine and S-Adenosyl-L-methionine for Methylation of Soluble RNA by Mouse Liver and Hepatoma Extracts1 R. L. HANCOCK The Jackson Laboratory, Bar Harbor, Maine SUMMARY following reaction: ATP + L-methionine = SAM + pyrophos The methyl group of L-methionine or S-adenosyl-L-methionine phate + monophosphate (7). SAM is used in the methylation of sRNA by sRNA methylases in the following reaction: sRNA + is used by nonparticulate mouse liver and hepatoma prepara SAM = methylated sRNA + S-adenosyl-L-homocysteine (10). tions to methylate soluble ribonucleic acid (sRNA). Esclierichia The two enzyme reactions are presented along with a representa coli K12 sRNA was a more active substrate than yeast sRNA. tion of the origin of the unmethylated sRNA (tp-RNA) in Chart Four different lots of E. coli B sRNA gave similar incorporations between lots. "Stripped" and "nonstripped" sRNA had similar 1. An array of RNA methylases exhibiting specificity for par ticular bases and for sRNA from different biologic sources, along amounts of methyl incorporation. Other nucleoside triphosphates with other, less si^ecific RNA methylases, has been described besides adenosine triphosphate were capable of sup]x>rting the incorjioration of methyl groups from L-methionine into sRNA. (11, 15, 16, 17, 22). The most extensively methylated sRNA molecules known have been found in mammary adenocarcinoma The nonspecificity of the nucleoside triphosphate reaction was tissue (3), and recently Mittelman et al. (18) have found RNA shown to be due to an adenosine diphosphokinase reaction and methylase activity to be extremely high in certain viral-induced not to nucleoside tri phosphate: L-methionine nucleosidyl trans- tumor cells. -
Role of Inosine Triphosphate Pyrophosphatase Gene Variant on Fever Incidence During Zidovudine Antiretroviral Therapy
Role of inosine triphosphate pyrophosphatase gene variant on fever incidence during zidovudine antiretroviral therapy A.V.C. Coelho1, S.P.S. Silva2, L. Zandonà3, G. Stocco3, G. Decorti3 and S. Crovella1,4 1Departamento de Genética, Universidade Federal de Pernambuco Federal de Pernambuco, Recife, PE, Brasil 2Programa de Pós-Graduação em Inovação Terapêutica, Universidade Federal de Pernambuco Federal de Pernambuco, Recife, PE, Brasil 3Department of Life Sciences, University of Trieste, Trieste, Italy 4Institute for Maternal and Child Health, Scientific Institute for Research, Hospitalization and Care Burlo Garofolo, Trieste, Italy Corresponding author: A.V.C. Coelho E-mail: [email protected] / [email protected] Genet. Mol. Res. 16 (1): gmr16019373 Received September 22, 2016 Accepted November 18, 2016 Published January 23, 2017 DOI http://dx.doi.org/10.4238/gmr16019373 Copyright © 2017 The Authors. This is an open-access article distributed under the terms of the Creative Commons Attribution ShareAlike (CC BY-SA) 4.0 License. ABSTRACT. Zidovudine, the antiretroviral drug used to treat HIV infection, commonly causes adverse effects, such as systemic fever and gastrointestinal alterations. In the present study, the potential role of inosine triphosphate pyrophosphatase (ITPA) gene variant on the incidence of adverse events during antiretroviral therapy (ART) of HIV with zidovudine was discussed. Individuals from Northeastern Brazil (N = 204) receiving treatment for HIV-1 infection were recruited. Zidovudine-related adverse effects developed during the treatment were registered. The rs1127354 polymorphism in the ITPA gene was Genetics and Molecular Research 16 (1): gmr16019373 A.V.C. Coelho et al. 2 genotyped using real-time PCR to assess whether this single nucleotide polymorphism was associated with the occurrence of zidovudine- related adverse effects. -
The Metabolic Building Blocks of a Minimal Cell Supplementary
The metabolic building blocks of a minimal cell Mariana Reyes-Prieto, Rosario Gil, Mercè Llabrés, Pere Palmer and Andrés Moya Supplementary material. Table S1. List of enzymes and reactions modified from Gabaldon et. al. (2007). n.i.: non identified. E.C. Name Reaction Gil et. al. 2004 Glass et. al. 2006 number 2.7.1.69 phosphotransferase system glc + pep → g6p + pyr PTS MG041, 069, 429 5.3.1.9 glucose-6-phosphate isomerase g6p ↔ f6p PGI MG111 2.7.1.11 6-phosphofructokinase f6p + atp → fbp + adp PFK MG215 4.1.2.13 fructose-1,6-bisphosphate aldolase fbp ↔ gdp + dhp FBA MG023 5.3.1.1 triose-phosphate isomerase gdp ↔ dhp TPI MG431 glyceraldehyde-3-phosphate gdp + nad + p ↔ bpg + 1.2.1.12 GAP MG301 dehydrogenase nadh 2.7.2.3 phosphoglycerate kinase bpg + adp ↔ 3pg + atp PGK MG300 5.4.2.1 phosphoglycerate mutase 3pg ↔ 2pg GPM MG430 4.2.1.11 enolase 2pg ↔ pep ENO MG407 2.7.1.40 pyruvate kinase pep + adp → pyr + atp PYK MG216 1.1.1.27 lactate dehydrogenase pyr + nadh ↔ lac + nad LDH MG460 1.1.1.94 sn-glycerol-3-phosphate dehydrogenase dhp + nadh → g3p + nad GPS n.i. 2.3.1.15 sn-glycerol-3-phosphate acyltransferase g3p + pal → mag PLSb n.i. 2.3.1.51 1-acyl-sn-glycerol-3-phosphate mag + pal → dag PLSc MG212 acyltransferase 2.7.7.41 phosphatidate cytidyltransferase dag + ctp → cdp-dag + pp CDS MG437 cdp-dag + ser → pser + 2.7.8.8 phosphatidylserine synthase PSS n.i. cmp 4.1.1.65 phosphatidylserine decarboxylase pser → peta PSD n.i. -
Coupled Nucleoside Phosphorylase Reactions in Escherichia Coli John Lewis Ott Iowa State College
Iowa State University Capstones, Theses and Retrospective Theses and Dissertations Dissertations 1956 Coupled nucleoside phosphorylase reactions in Escherichia coli John Lewis Ott Iowa State College Follow this and additional works at: https://lib.dr.iastate.edu/rtd Part of the Biochemistry Commons, and the Microbiology Commons Recommended Citation Ott, John Lewis, "Coupled nucleoside phosphorylase reactions in Escherichia coli " (1956). Retrospective Theses and Dissertations. 13758. https://lib.dr.iastate.edu/rtd/13758 This Dissertation is brought to you for free and open access by the Iowa State University Capstones, Theses and Dissertations at Iowa State University Digital Repository. It has been accepted for inclusion in Retrospective Theses and Dissertations by an authorized administrator of Iowa State University Digital Repository. For more information, please contact [email protected]. NOTE TO USERS This reproduction is the best copy available. UMI COUPLED NUCLEOSIDE PHOSPHORYLASE REACTIONS IN ESCHERICHIA COLI / by John Lewis Ott A Dissertation Submitted to the Graduate Faculty in Partial Fulfillment of The Requirements for the Degree of DOCTOR OF PHILOSOPHY Major Subject: Physlolgglcal Bacteriology Approved: Signature was redacted for privacy. In Charge of Major Work Signature was redacted for privacy. Head of Major Department Signature was redacted for privacy. Dean of Graduate College Iowa State College 1956 UMI Number: DP12892 INFORMATION TO USERS The quality of this reproduction is dependent upon the quality of the copy submitted. Broken or indistinct print, colored or poor quality illustrations and photographs, print bleed-through, substandard margins, and improper alignment can adversely affect reproduction. In the unlikely event that the author did not send a complete manuscript and there are missing pages, these will be noted.