Clearance of Rapid Adenosine Release Is Regulated by Nucleoside Transporters and Metabolism Michael D
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Nucleotide Degradation
Nucleotide Degradation Nucleotide Degradation The Digestion Pathway • Ingestion of food always includes nucleic acids. • As you know from BI 421, the low pH of the stomach does not affect the polymer. • In the duodenum, zymogens are converted to nucleases and the nucleotides are converted to nucleosides by non-specific phosphatases or nucleotidases. nucleases • Only the non-ionic nucleosides are taken & phospho- diesterases up in the villi of the small intestine. Duodenum Non-specific phosphatases • In the cell, the first step is the release of nucleosides) the ribose sugar, most effectively done by a non-specific nucleoside phosphorylase to give ribose 1-phosphate (Rib1P) and the free bases. • Most ingested nucleic acids are degraded to Rib1P, purines, and pyrimidines. 1 Nucleotide Degradation: Overview Fate of Nucleic Acids: Once broken down to the nitrogenous bases they are either: Nucleotides 1. Salvaged for recycling into new nucleic acids (most cells; from internal, Pi not ingested, nucleic Nucleosides acids). Purine Nucleoside Pi aD-Rib 1-P (or Rib) 2. Oxidized (primarily in the Phosphorylase & intestine and liver) by first aD-dRib 1-P (or dRib) converting to nucleosides, Bases then to –Uric Acid (purines) –Acetyl-CoA & Purine & Pyrimidine Oxidation succinyl-CoA Salvage Pathway (pyrimidines) The Salvage Pathways are in competition with the de novo biosynthetic pathways, and are both ANABOLISM Nucleotide Degradation Catabolism of Purines Nucleotides: Nucleosides: Bases: 1. Dephosphorylation (via 5’-nucleotidase) 2. Deamination and hydrolysis of ribose lead to production of xanthine. 3. Hypoxanthine and xanthine are then oxidized into uric acid by xanthine oxidase. Spiders and other arachnids lack xanthine oxidase. -
Towards the Elucidation of Orphan Lysosomal Transporters Quentin Verdon
Towards the Elucidation of Orphan Lysosomal Transporters Quentin Verdon To cite this version: Quentin Verdon. Towards the Elucidation of Orphan Lysosomal Transporters. Cancer. Université Paris Saclay (COmUE), 2016. English. NNT : 2016SACLS144. tel-01827233 HAL Id: tel-01827233 https://tel.archives-ouvertes.fr/tel-01827233 Submitted on 2 Jul 2018 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. NNT : 2016SACLS144 THESE DE DOCTORAT DE L’UNIVERSITE PARIS-SACLAY PREPAREE A L’UNIVERSITE PARIS-SUD ECOLE DOCTORALE N°568 BIOSIGNE | Signalisations et réseaux intégratifs en biologie Spécialité de doctorat : aspects moléculaires et cellulaires de la biologie Par Mr Quentin Verdon Towards the elucidation of orphan lysosomal transporters: several shots on target and one goal Thèse présentée et soutenue à Paris le 29/06/2016 » : Composition du Jury : Mr Le Maire Marc Professeur, Université Paris-Sud Président Mr Birman Serge Directeur de recherche, CNRS Rapporteur Mr Murray James Assistant professor, Trinity college Dublin Rapporteur Mr Goud Bruno Directeur de recherche, CNRS Examinateur Mr Gasnier Bruno Directeur de recherche, CNRS Directeur de thèse Mme Sagné Corinne Chargée de recherche, INSERM Co-directeur de thèse Table of contents Remerciements (acknowledgements) 6 Abbreviations 7 Abstracts 10 Introduction 12 1 Physiology of lysosomes 12 1.1 Discovery and generalities 12 1.2 Degradative function 13 1.3. -
Biomarker Status of the Human Equilibrative Nucleoside
cancers Article “Open Sesame?”: Biomarker Status of the Human Equilibrative Nucleoside Transporter-1 and Molecular Mechanisms Influencing its Expression and Activity in the Uptake and Cytotoxicity of Gemcitabine in Pancreatic Cancer 1,2, 1, 1,3 1 Ornella Randazzo y, Filippo Papini y, Giulia Mantini , Alessandro Gregori , Barbara Parrino 2, Daniel S. K. Liu 4 , Stella Cascioferro 2 , Daniela Carbone 2 , 1,5 4,6, 1,7, Godefridus J. Peters , Adam E. Frampton * , Ingrid Garajova y and Elisa Giovannetti 1,3,* 1 Department of Medical Oncology, Cancer Center Amsterdam, Amsterdam UMC, VU University Medical Center (VUmc), 1081 HV Amsterdam, The Netherlands; [email protected] (O.R.); [email protected] (F.P.); [email protected] (G.M.); [email protected] (A.G.); [email protected] (G.J.P.); [email protected] (I.G.) 2 Dipartimento di Scienze e Tecnologie Biologiche Chimiche e Farmaceutiche (STEBICEF), Università degli Studi di Palermo, 90123 Palermo, Italy; [email protected] (B.P.); [email protected] (S.C.); [email protected] (D.C.) 3 Cancer Pharmacology Lab, AIRC Start Up Unit, Fondazione Pisana per la Scienza, 56017 Pisa, Italy 4 Division of Cancer, Department of Surgery & Cancer, Imperial College, Hammersmith Hospital campus, London W12 0NN, UK;; [email protected] 5 Department of Biochemistry, Medical University of Gdansk, 80-210 Gdansk, Poland 6 Faculty of Health and Medical Sciences, The Leggett Building, University of Surrey, Guildford GU2 7XH, UK 7 Medical Oncology Unit, University Hospital of Parma, Via Gramsci 14, 43126 Parma, Italy * Correspondence: [email protected] (A.E.F.); [email protected] (E.G.); Tel.: +31-003-120-444-2633 (E.G.) These authors contributed equally to this paper. -
Supplementary Table S4. FGA Co-Expressed Gene List in LUAD
Supplementary Table S4. FGA co-expressed gene list in LUAD tumors Symbol R Locus Description FGG 0.919 4q28 fibrinogen gamma chain FGL1 0.635 8p22 fibrinogen-like 1 SLC7A2 0.536 8p22 solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 DUSP4 0.521 8p12-p11 dual specificity phosphatase 4 HAL 0.51 12q22-q24.1histidine ammonia-lyase PDE4D 0.499 5q12 phosphodiesterase 4D, cAMP-specific FURIN 0.497 15q26.1 furin (paired basic amino acid cleaving enzyme) CPS1 0.49 2q35 carbamoyl-phosphate synthase 1, mitochondrial TESC 0.478 12q24.22 tescalcin INHA 0.465 2q35 inhibin, alpha S100P 0.461 4p16 S100 calcium binding protein P VPS37A 0.447 8p22 vacuolar protein sorting 37 homolog A (S. cerevisiae) SLC16A14 0.447 2q36.3 solute carrier family 16, member 14 PPARGC1A 0.443 4p15.1 peroxisome proliferator-activated receptor gamma, coactivator 1 alpha SIK1 0.435 21q22.3 salt-inducible kinase 1 IRS2 0.434 13q34 insulin receptor substrate 2 RND1 0.433 12q12 Rho family GTPase 1 HGD 0.433 3q13.33 homogentisate 1,2-dioxygenase PTP4A1 0.432 6q12 protein tyrosine phosphatase type IVA, member 1 C8orf4 0.428 8p11.2 chromosome 8 open reading frame 4 DDC 0.427 7p12.2 dopa decarboxylase (aromatic L-amino acid decarboxylase) TACC2 0.427 10q26 transforming, acidic coiled-coil containing protein 2 MUC13 0.422 3q21.2 mucin 13, cell surface associated C5 0.412 9q33-q34 complement component 5 NR4A2 0.412 2q22-q23 nuclear receptor subfamily 4, group A, member 2 EYS 0.411 6q12 eyes shut homolog (Drosophila) GPX2 0.406 14q24.1 glutathione peroxidase -
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]. -
Structure-Activity Relationship and Mechanistic Studies on The
University of Tennessee Health Science Center UTHSC Digital Commons Theses and Dissertations (ETD) College of Graduate Health Sciences 12-2008 Structure-Activity Relationship and Mechanistic Studies on the Chemopreventive Activity of Dipyridamole and Its Analogues Ja’Wanda Shavon Grant University of Tennessee Health Science Center Follow this and additional works at: https://dc.uthsc.edu/dissertations Part of the Pharmacy and Pharmaceutical Sciences Commons Recommended Citation Grant, Ja’Wanda Shavon , "Structure-Activity Relationship and Mechanistic Studies on the Chemopreventive Activity of Dipyridamole and Its Analogues" (2008). Theses and Dissertations (ETD). Paper 100. http://dx.doi.org/10.21007/ etd.cghs.2008.0114. This Dissertation is brought to you for free and open access by the College of Graduate Health Sciences at UTHSC Digital Commons. It has been accepted for inclusion in Theses and Dissertations (ETD) by an authorized administrator of UTHSC Digital Commons. For more information, please contact [email protected]. Structure-Activity Relationship and Mechanistic Studies on the Chemopreventive Activity of Dipyridamole and Its Analogues Document Type Dissertation Degree Name Doctor of Philosophy (PhD) Program Pharmaceutical Sciences Research Advisor John K. Buolamwini, Ph.D. Committee Richard E. Lee, Ph.D. Duane Miller, Ph.D. David Nelson, Ph.D. Jie Zheng, Ph.D. DOI 10.21007/etd.cghs.2008.0114 This dissertation is available at UTHSC Digital Commons: https://dc.uthsc.edu/dissertations/100 STRUCTURE-ACTIVITY RELATIONSHIP AND -
Nucleosides & Nucleotides
Nucleosides & Nucleotides Biochemistry Fundamentals > Genetic Information > Genetic Information NUCLEOSIDE AND NUCLEOTIDES SUMMARY NUCLEOSIDES  • Comprise a sugar and a base NUCLEOTIDES  • Phosphorylated nucleosides (at least one phosphorus group) • Link in chains to form polymers called nucleic acids (i.e. DNA and RNA) N-BETA-GLYCOSIDIC BOND  • Links nitrogenous base to sugar in nucleotides and nucleosides • Purines: C1 of sugar bonds with N9 of base • Pyrimidines: C1 of sugar bonds with N1 of base PHOSPHOESTER BOND • Links C3 or C5 hydroxyl group of sugar to phosphate NITROGENOUS BASES  • Adenine • Guanine • Cytosine • Thymine (DNA) 1 / 8 • Uracil (RNA) NUCLEOSIDES • =sugar + base • Adenosine • Guanosine • Cytidine • Thymidine • Uridine NUCLEOTIDE MONOPHOSPHATES – ADD SUFFIX 'SYLATE' • = nucleoside + 1 phosphate group • Adenylate • Guanylate • Cytidylate • Thymidylate • Uridylate Add prefix 'deoxy' when the ribose is a deoxyribose: lacks a hydroxyl group at C2. • Thymine only exists in DNA (deoxy prefix unnecessary for this reason) • Uracil only exists in RNA NUCLEIC ACIDS (DNA AND RNA)  • Phosphodiester bonds: a phosphate group attached to C5 of one sugar bonds with - OH group on C3 of next sugar • Nucleotide monomers of nucleic acids exist as triphosphates • Nucleotide polymers (i.e. nucleic acids) are monophosphates • 5' end is free phosphate group attached to C5 • 3' end is free -OH group attached to C3 2 / 8 FULL-LENGTH TEXT • Here we will learn about learn about nucleoside and nucleotide structure, and how they create the backbones of nucleic acids (DNA and RNA). • Start a table, so we can address key features of nucleosides and nucleotides. • Denote that nucleosides comprise a sugar and a base. -
Nucleoside Transporter Expression and Function in Cultured Mouse Astrocytes
GLIA 52:25–35 (2005) Nucleoside Transporter Expression and Function in Cultured Mouse Astrocytes LIANG PENG,1 RONG HUANG,2 ALBERT C.H. YU,1 KING Y. FUNG,1 MICHEL P. RATHBONE,3 AND LEIF HERTZ1,2* 1Hong Kong DNA Chips, Ltd., Kowloon, Hong Kong, China 2Department of Pharmacology, University of Saskatchewan, Saskatoon, Saskatchewan, Canada 3Department of Medicine, McMaster University, Hamilton, Ontario, Canada KEY WORDS and play important roles in energy homeostasis and sig- adenosine; CNT2; ENT1; ENT2; guanosine; thymidine naling; (3) astrocytes synthesize guanine nucleotides (Pelled et al., 1999); (4) ATP is released from astrocytes during the propagation of Ca21 waves (Guthrie et al., ABSTRACT 1999) and degraded extracellularly; and (5) adenosine Uptake of purine and pyrimidine nucleosides in astrocytes is and guanosine function as neuromodulators, acting on P1 important for several reasons: (1) uptake of nucleosides con- tributes to nucleic acid synthesis; (2) astrocytes synthesize purinergic receptors of different subtypes in neurons and/ AMP, ADP, and ATP from adenosine and GTP from guano- or astrocytes (van Calker and Hamprecht, 1979; Kim sine; and (3) adenosine and guanosine function as neuromo- et al., 1991; Rathbone et al., 1999; Ciccarelli et al., 2001; dulators, whose effects are partly terminated by cellular Chen et al., 2001; Di Iorio et al., 2004; Wittendorp et al., uptake. It has previously been shown that adenosine is 2004), and cellular uptake contributes to the termination rapidly accumulated by active uptake in astrocytes (Hertz of their neuromodulator effects. However, except for ade- and Matz, Neurochem Res 14:755–760, 1989), but the ratio nosine (Hertz, 1978; Thampy and Barnes, 1983; Bender between active uptake and metabolism-driven uptake of ade- and Hertz, 1986; Hosli€ and Hosli,€ 1988; Matz and Hertz, nosine is unknown, as are uptake characteristics for guano- 1990; Bender et al., 1994; Othman et al., 2002), only little sine. -
Nucleoside Diphosphokinase of Eschericia Coli and Its Interactions With
AN ABSTRACT OF THE THESIS OF Nancy Bisset Ray for the degree of Doctor of Philosophy in Biochemistry and Biophysics presented on May 8, 1992 Title : Nucleoside Diphosphokinase of Eschericia coli and its Interactions with Bacteriophape T4 proteins of DNA synthesis Redacted for privacy Abstract approved: Escherichia coli nucleoside diphosphokinase (NDPK), the product of gene ndk, synthesizes nucleoside triphosphates from the corresponding diphosphates. This bacterial enzyme is an integral component of the T4 bacteriophage dNTP synthetase complex, a multienzyme complex for deoxyribonucleotide biosynthesis, and it plays an indispensable role in T4 DNA replication. A goal was established to locate and clone ndk, in order to overexpress the gene and obtain large enough quantities of the enzyme for the analysis of protein interactions, involving NDPK and proteins of both the T4 dNTP synthetase complex and the T4 DNA replication complex. NDPK was first purified 5000-fold from crude extracts of E. coli B cells for N-terminal amino acid sequencing. Over forty residues of N-terminal sequence were determined, providing information used to design mixed oligonucleotide probes, designed to search for the ndk gene in the Clarke and Carbon E. coif ColE1 plasmid library. A 3.2-kb Pst I fragment from the Clarke and Carbon plasmid, pLC34-9, hybridized specifically to one of the probes and was subcloned into pUC19. Six- fold higher NDPK enzyme activity, over host NDPK enzyme activity, was generated by the recombinant pUC19 plasmid in JM83 cells. A 6.0-kb EcoRl fragment from the Kohara E. co/i lambda library, mapping to approximately the same area, was also cloned into pUC18 based on the elevated, overlapping NDPK enzyme activity of two lambda clones, 2D5 and 7F8. -
Transporters
Alexander, S. P. H., Kelly, E., Mathie, A., Peters, J. A., Veale, E. L., Armstrong, J. F., Faccenda, E., Harding, S. D., Pawson, A. J., Sharman, J. L., Southan, C., Davies, J. A., & CGTP Collaborators (2019). The Concise Guide to Pharmacology 2019/20: Transporters. British Journal of Pharmacology, 176(S1), S397-S493. https://doi.org/10.1111/bph.14753 Publisher's PDF, also known as Version of record License (if available): CC BY Link to published version (if available): 10.1111/bph.14753 Link to publication record in Explore Bristol Research PDF-document This is the final published version of the article (version of record). It first appeared online via Wiley at https://bpspubs.onlinelibrary.wiley.com/doi/full/10.1111/bph.14753. Please refer to any applicable terms of use of the publisher. University of Bristol - Explore Bristol Research General rights This document is made available in accordance with publisher policies. Please cite only the published version using the reference above. Full terms of use are available: http://www.bristol.ac.uk/red/research-policy/pure/user-guides/ebr-terms/ S.P.H. Alexander et al. The Concise Guide to PHARMACOLOGY 2019/20: Transporters. British Journal of Pharmacology (2019) 176, S397–S493 THE CONCISE GUIDE TO PHARMACOLOGY 2019/20: Transporters Stephen PH Alexander1 , Eamonn Kelly2, Alistair Mathie3 ,JohnAPeters4 , Emma L Veale3 , Jane F Armstrong5 , Elena Faccenda5 ,SimonDHarding5 ,AdamJPawson5 , Joanna L Sharman5 , Christopher Southan5 , Jamie A Davies5 and CGTP Collaborators 1School of Life Sciences, -
Deoxyadenosine Triphosphate As a Mediator of Deoxyguanosine Toxicity in Cultured T Lymphoblasts
Deoxyadenosine triphosphate as a mediator of deoxyguanosine toxicity in cultured T lymphoblasts. G J Mann, R M Fox J Clin Invest. 1986;78(5):1261-1269. https://doi.org/10.1172/JCI112710. Research Article The mechanism by which 2'-deoxyguanosine is toxic for lymphoid cells is relevant both to the severe cellular immune defect of inherited purine nucleoside phosphorylase (PNP) deficiency and to attempts to exploit PNP inhibitors therapeutically. We have studied the cell cycle and biochemical effects of 2'-deoxyguanosine in human lymphoblasts using the PNP inhibitor 8-aminoguanosine. We show that cytostatic 2'-deoxyguanosine concentrations cause G1-phase arrest in PNP-inhibited T lymphoblasts, regardless of their hypoxanthine guanine phosphoribosyltransferase status. This effect is identical to that produced by 2'-deoxyadenosine in adenosine deaminase-inhibited T cells. 2'-Deoxyguanosine elevates both the 2'-deoxyguanosine-5'-triphosphate (dGTP) and 2'-deoxyadenosine-5'-triphosphate (dATP) pools; subsequently pyrimidine deoxyribonucleotide pools are depleted. The time course of these biochemical changes indicates that the onset of G1-phase arrest is related to increase of the dATP rather than the dGTP pool. When dGTP elevation is dissociated from dATP elevation by coincubation with 2'-deoxycytidine, dGTP does not by itself interrupt transit from the G1 to the S phase. It is proposed that dATP can mediate both 2'-deoxyguanosine and 2'-deoxyadenosine toxicity in T lymphoblasts. Find the latest version: https://jci.me/112710/pdf Deoxyadenosine Triphosphate as a Mediator of Deoxyguanosine Toxicity in Cultured T Lymphoblasts G. J. Mann and R. M. Fox Ludwig Institute for Cancer Research (Sydney Branch), University ofSydney, Sydney, New South Wales 2006, Australia Abstract urine of PNP-deficient individuals, with elevation of plasma inosine and guanosine and mild hypouricemia (3). -
Stereospecific Synthesis of A-Anomeric Pyrimidine Nucleoside
© 2000 Oxford University Press Nucleic Acids Symposium Series No. 44 21-22 Stereospecific synthesis of a-anomeric pyrimidine nucleoside Kazuo Shinozuka, Noritake Matsumoto, Akiko Nakamura, Hidekazu Hayashi and Hiroaki Sawai Faculty of Engineering, Gunma University, 1-5-1 Tenjincho, Kiryu, Gunma 376-8515, Japan Downloaded from https://academic.oup.com/nass/article/44/1/21/1019127 by guest on 01 October 2021 ABSTRACT INTRODUCTION A facile stereospecific synthetic method Oligodeoxynucleotide consisted of exclusively a- for a-anomeric 2'-deoxypyrimidine anomeric pyrimidine nucleotide units has several nucleoside unit utilizing aminooxazoline interesting features such as parallel annealing with derivative of ribofuranose was its complementary DNA or RNA,1 high nuclease investigated. Thus, easily accessible resistant property,2 and both of paralell and riboaminooxazoline derivative prepared by antiparalell annealing with double stranded DNA to ribose and cyanamid was allowed to react form triple helix.3 The reports of stereospecific with ethyl a-bromoethylacrylate to give preparation of a-anomeric 2'-deoxynucleoside corresponding adduct. The adduct was have been, however, very limited in literature. cyclized by strong base such as potassium Previously we have made a preliminary report *-butokiside. The resulted 2,2'- about facile stereospecific preparation of a- cyclonucleoside was then treated with anomeric thymidine utilizing riboaminooxazoline acetyl bromide followed by n-butyltin derivative.4 Here, we wish to present the results of hydride to give a-anomeric 3',5'-di-0- our farther investigation of the above method to acetylthymidine. 3',5'-Di-0-acety groups prepare a-anomeric 2'-deoxypyrimidine of the nucleoside were easily removed by nucleosides. the action of excess of triethyl amine in methanol.