Challenges on Cyclic Nucleotide Phosphodiesterases Imaging with Positron Emission Tomography: Novel Radioligands and (Pre-)Clinical Insights Since 2016

Total Page:16

File Type:pdf, Size:1020Kb

Challenges on Cyclic Nucleotide Phosphodiesterases Imaging with Positron Emission Tomography: Novel Radioligands and (Pre-)Clinical Insights Since 2016 International Journal of Molecular Sciences Review Challenges on Cyclic Nucleotide Phosphodiesterases Imaging with Positron Emission Tomography: Novel Radioligands and (Pre-)Clinical Insights since 2016 Susann Schröder 1,2,* , Matthias Scheunemann 2, Barbara Wenzel 2 and Peter Brust 2 1 Department of Research and Development, ROTOP Pharmaka Ltd., 01328 Dresden, Germany 2 Department of Neuroradiopharmaceuticals, Institute of Radiopharmaceutical Cancer Research, Research Site Leipzig, Helmholtz-Zentrum Dresden-Rossendorf (HZDR), 04318 Leipzig, Germany; [email protected] (M.S.); [email protected] (B.W.); [email protected] (P.B.) * Correspondence: [email protected]; Tel.: +49-341-234-179-4631 Abstract: Cyclic nucleotide phosphodiesterases (PDEs) represent one of the key targets in the research field of intracellular signaling related to the second messenger molecules cyclic adenosine monophosphate (cAMP) and/or cyclic guanosine monophosphate (cGMP). Hence, non-invasive imaging of this enzyme class by positron emission tomography (PET) using appropriate isoform- selective PDE radioligands is gaining importance. This methodology enables the in vivo diagnosis and staging of numerous diseases associated with altered PDE density or activity in the periphery and the central nervous system as well as the translational evaluation of novel PDE inhibitors as therapeutics. In this follow-up review, we summarize the efforts in the development of novel PDE radioligands and highlight (pre-)clinical insights from PET studies using already known PDE Citation: Schröder, S.; Scheunemann, radioligands since 2016. M.; Wenzel, B.; Brust, P. Challenges on Cyclic Nucleotide Keywords: positron emission tomography; cyclic nucleotide phosphodiesterases; PDE inhibitors; Phosphodiesterases Imaging with PDE radioligands; radiochemistry; imaging; recent (pre-)clinical insights Positron Emission Tomography: Novel Radioligands and (Pre-)Clinical Insights since 2016. Int. J. Mol. Sci. 2021, 22, 3832. https:// doi.org/10.3390/ijms22083832 1. Introduction This follow-up of our first review in 2016 [1] aims to report on (I) novel radioligands Academic Editor: Fabio Naro for imaging of cyclic nucleotide phosphodiesterases (PDEs) with positron emission to- mography (PET) and (II) recent (pre-)clinical insights from PET studies using already Received: 26 February 2021 known PDE radioligands. The biological and pathophysiological background of PDEs has Accepted: 31 March 2021 previously been summarized [1] and thus, this review will be focused only on the current Published: 7 April 2021 radiotracer development as well as the latest research findings. Briefly, PDEs are a class of intracellular enzymes that are expressed throughout the body. They are encoded by Publisher’s Note: MDPI stays neutral 21 genes and divided into 11 families that are subdivided into various subfamilies with with regard to jurisdictional claims in different isoforms. Their central role is to hydrolyze the second messenger molecules, cyclic published maps and institutional affil- adenosine monophosphate (cAMP) and/or cyclic guanosine monophosphate (cGMP) and, iations. therefore, to regulate the intracellular levels as well as the signaling cascades of these cyclic nucleotides. Several PDE inhibitors have been developed as therapeutics for treatment of various diseases like neurological, cardiovascular, immune or inflammatory disorders, cancer, and metabolism. However, the link between altered PDE expression and/or activity Copyright: © 2021 by the authors. and pathophysiological effects often remains unclear. Hence, in vivo imaging and quan- Licensee MDPI, Basel, Switzerland. tification of PDEs with appropriate radioligands for PET is commended as an important This article is an open access article research and translational tool in related (pre-)clinical investigations. distributed under the terms and To the best of our knowledge, there is still a lack of PET radioligands for the PDE conditions of the Creative Commons families 3, 6, 8, 9, and 11. Herein, we will review novel radioligands as well as current Attribution (CC BY) license (https:// results from (pre-)clinical PET studies related to the PDEs 1, 2A, 4, 5, 7 and 10A. creativecommons.org/licenses/by/ 4.0/). Int. J. Mol. Sci. 2021, 22, 3832. https://doi.org/10.3390/ijms22083832 https://www.mdpi.com/journal/ijms Int. J. Mol. Sci. 2021, 22, x FOR PEER REVIEW 2 of 45 Int. J. Mol. Sci. 2021, 22, 3832 2 of 44 2. PDE1 Radioligands 2. PDE1PDE1 Radioligands is one of dual-substrate specific PDEs that hydrolyses both cyclic nucleotides cAMP and cGMP. The special characteristic of the PDE1 family is the calcium/calmodulin- PDE1 is one of dual-substrate specific PDEs that hydrolyses both cyclic nucleotides dependentcAMP and cGMP.regulation The of special the enzyme characteristic activity. of Hence, the PDE1 PDE1 family is suggested is the calcium/calmodulin- as an integration pointdependent for intracellular regulation calcium of the enzyme and cyclic activity. nucleotide Hence, sign PDE1aling is suggestedcascades [2] as. anThe integration PDE1 en- zymepoint is for encoded intracellular by the calcium three gene ands PDE1A cyclic nucleotide, PDE1B and signaling PDE1C, cascadeswhich are [2 all]. Theexpressed PDE1 inenzyme the brain is encoded where PDE1B by the threerepresents genes thePDE1A most, PDE1B abundantand PDE1PDE1C isoform., which In are the all periphery, expressed PDE1Ain the brain is predominant where PDE1B in the represents kidneys, the while most PDE1C abundant is highly PDE1 expressed isoform. In in the the periphery, heart [3]. ItPDE1A is presumed, is predominant that PDE1 in-specific the kidneys, inhibitors while might PDE1C be suitable is highly for expressed the treatment in the of heart various [3]. neuropsychiatricIt is presumed, that and PDE1-specific neurodegenerative inhibitors diseases, might like be attention suitable fordeficit the hyperactivity treatment of vari-dis- order,ous neuropsychiatric depression, Parkinson and neurodegenerative’s disease and Huntington´s diseases, like disease attention [4–7 deficit]. hyperactivity disorder,The first depression, 11C- or 18 Parkinson’sF-labeled radioligan disease andds for Huntington’s PET imaging disease of PDE1 [4– have7]. been claimed in a patentThe first in 112011C- or [8]18 F-labeledas already radioligands reviewed by for Andrés PET imaging et al. [9] of. PDE1However, have beenit seems claimed that furtherin a patent publications in 2011 [8 ]regarding as already subsequent reviewed by biological Andrés etinvestigations al. [9]. However, of these it seems PDE1 that radi- fur- oligandsther publications are up to regarding now not subsequentavailable. At biological the international investigations symposium of these PDE1of functional radioligands neu- roreceptorare up to now mapping not available. of the living At the brain international (NRM) insymposium 2018, Kealey of et functional al. [10] reported neuroreceptor on the preliminarymapping of thein livingvivo evaluation brain (NRM) of in the 2018, novel Kealey PDE1 et al.-specific [10] reported radioligand on the preliminary(±)-[11C]PF- 04822163in vivo evaluation ([11C]1, see of Scheme the novel 1). Out PDE1-specific of a series of radioligand quinazoline (±-based)-[11C] PDE1PF-04822163-selective([ inhib-11C]1, itorsees Scheme developed1). Out by ofHumphrey a series of et quinazoline-based al. [11], compound PDE1-selective 1 proved to be inhibitors the most potent developed can- didateby Humphrey (Scheme et 1) al. and [11 was], compound thus selected1 proved for 11C to-labeling. be the most Starting potent from candidate the corresponding (Scheme1) 11 phenoland was precursor, thus selected [11C] for1 hasC-labeling. been synthesized Starting fromby O the-methylation corresponding using phenol [11C]CH precursor,3I [10] 11 11 (Scheme[ C]1 has 1). been synthesized by O-methylation using [ C]CH3I[10] (Scheme1). Scheme 1. Molecular structure, half maximal inhibitory concentrations ( (ICIC50 valuesvalues)) for for the the PDE1 PDE1 isoforms isoforms and and radiosyn- radiosyn- 11 thesis and of ([ C])C])11 [10,11][10,11] (RCY (RCY = = radiochemical radiochemical yield; yield; A Amm == molar molar activity; activity; EOS EOS = =end end of of synthesis). synthesis). PETPET imaging studies in rats showed high initialinitial brain uptake of [1111C]C]11 with a peak standardizedstandardized uptake uptake value value (SUV) (SUV) of of 7 7 at 1 min post injection (p.i.), followed by a fast 11 washout [10] [10].. In In the the target region striatum, only slightlyslightly higherhigher accumulationaccumulation ofof [[11C]1 comparedcompared to to the reference region cerebellum was observed, indicating high non-specificnon-specific binding.binding. M Metaboliteetabolite analysis analysis revealed revealed low low inin vivo vivo stabilitystability with with 45% and 30% of intact 11 [[11C]C]11 inin plasma plasma at at 5 5 min min and and 10 10 min min p.i., p.i., respectively, respectively, while while a a single single polar polar radiometabolite radiometabolite 11 was detected detected [10] [10].. Keal Kealeyey et et al. al. suggested suggested that that the the fast fast degradation degradation of [ of11C] [ 1 C]causes1 causes the rapidthe rapid brain brain clearance, clearance, but further but further studies studies to investiga to investigatete the radioligand the radioligand kinetics kinetics and spec- and ificityspecificity of binding of binding are arerequired required [10] [10. Overall,]. Overall, the the short short brain brain retention
Recommended publications
  • Multimodal Treatment Strategies in Huntington's Disease
    Review Article More Information *Address for Correspondence: Rajib Dutta, MD, Neurology, India, Multimodal treatment strategies in Email: [email protected] Submitted: June 23, 2021 Huntington’s disease Approved: July 12, 2021 Published: July 15, 2021 Rajib Dutta* How to cite this article: Dutta R. Multimodal treatment strategies in Huntington’s disease. MD J Neurosci Neurol Disord. 2021; 5: 072-082. DOI: 10.29328/journal.jnnd.1001054 Abstract ORCiD: orcid.org/0000-0002-6129-1038 Copyright: © 2021 Dutta R. This is an open access article distributed under the Creative Huntington’s disease (HD) is an incurable neurodegenerative disease that causes involuntary Commons Attribution License, which permits movements, emotional lability, and cognitive dysfunction. HD symptoms usually develop between unrestricted use, distribution, and reproduction ages 30 and 50, but can appear as early as 2 or as late as 80 years. Currently no neuroprotective in any medium, provided the original work is and neurorestorative interventions are available. Early multimodal intervention in HD is only properly cited. possible if the genetic diagnosis is made early. Early intervention in HD is only possible if genetic diagnosis is made at the disease onset or when mild symptoms manifest. Growing evidence and Keywords: Huntington’s disease; Genetic; understanding of HD pathomechanism has led researchers to new therapeutic targets. Here, in Pathogenesis; Therapeutic; Multimodal; this article we will talk about the multimodal treatment strategies and recent advances
    [Show full text]
  • Molecular Targets and Biological Functions of Camp Signaling in Arabidopsis
    biomolecules Article Molecular Targets and Biological Functions of cAMP Signaling in Arabidopsis Ruqiang Xu 1,2,*, Yanhui Guo 1, Song Peng 1, Jinrui Liu 1, Panyu Li 1, Wenjing Jia 1 and Junheng Zhao 1 1 School of Agricultural Sciences, Zhengzhou University, Zhengzhou 450001, China; [email protected] (Y.G.); [email protected] (S.P.); [email protected] (J.L.); [email protected] (P.L.); [email protected] (W.J.); [email protected] (J.Z.) 2 Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou 450001, China * Correspondence: [email protected]; Tel.: +86-0371-6778-5095 Abstract: Cyclic AMP (cAMP) is a pivotal signaling molecule existing in almost all living organisms. However, the mechanism of cAMP signaling in plants remains very poorly understood. Here, we employ the engineered activity of soluble adenylate cyclase to induce cellular cAMP elevation in Arabidopsis thaliana plants and identify 427 cAMP-responsive genes (CRGs) through RNA-seq analysis. Induction of cellular cAMP elevation inhibits seed germination, disturbs phytohormone contents, promotes leaf senescence, impairs ethylene response, and compromises salt stress tolerance and pathogen resistance. A set of 62 transcription factors are among the CRGs, supporting a prominent role of cAMP in transcriptional regulation. The CRGs are significantly overrepresented in the pathways of plant hormone signal transduction, MAPK signaling, and diterpenoid biosynthesis, but + they are also implicated in lipid, sugar, K , nitrate signaling, and beyond. Our results provide a basic framework of cAMP signaling for the community to explore. The regulatory roles of cAMP signaling Citation: Xu, R.; Guo, Y.; Peng, S.; in plant plasticity are discussed.
    [Show full text]
  • Mechanisms Whereby Extracellular Adenosine 3',5'- Monophosphate Inhibits Phosphate Transport in Cultured Opossum Kidney Cells and in Rat Kidney
    Mechanisms whereby extracellular adenosine 3',5'- monophosphate inhibits phosphate transport in cultured opossum kidney cells and in rat kidney. Physiological implication. G Friedlander, … , C Coureau, C Amiel J Clin Invest. 1992;90(3):848-858. https://doi.org/10.1172/JCI115960. Research Article The mechanism of phosphaturia induced by cAMP infusion and the physiological role of extracellular cAMP in modulation of renal phosphate transport were examined. In cultured opossum kidney cells, extracellular cAMP (10-1,000 microM) inhibited Na-dependent phosphate uptake in a time- and concentration-dependent manner. The effect of cAMP was reproduced by ATP, AMP, and adenosine, and was blunted by phosphodiesterase inhibitors or by dipyridamole which inhibits adenosine uptake. [3H]cAMP was degraded extracellularly into AMP and adenosine, and radioactivity accumulated in the cells as labeled adenosine and, subsequently, as adenine nucleotides including cAMP. Radioactivity accumulation was decreased by dipyridamole and by inhibitors of phosphodiesterases and ecto-5'-nucleotidase, assessing the existence of stepwise hydrolysis of extracellular cAMP and intracellular processing of taken up adenosine. In vivo, dipyridamole abolished the phosphaturia induced by exogenous cAMP infusion in acutely parathyroidectomized (APTX) rats, decreased phosphate excretion in intact rats, and blunted phosphaturia induced by PTH infusion in APTX rats. These results indicate that luminal degradation of cAMP into adenosine, followed by cellular uptake of the nucleoside by tubular cells, is a key event which accounts for the phosphaturic effect of exogenous cAMP and for the part of the phosphaturic effect of PTH which is mediated by cAMP added to the tubular lumen under the influence of the hormone.
    [Show full text]
  • Phosphodiesterase (PDE)
    Phosphodiesterase (PDE) Phosphodiesterase (PDE) is any enzyme that breaks a phosphodiester bond. Usually, people speaking of phosphodiesterase are referring to cyclic nucleotide phosphodiesterases, which have great clinical significance and are described below. However, there are many other families of phosphodiesterases, including phospholipases C and D, autotaxin, sphingomyelin phosphodiesterase, DNases, RNases, and restriction endonucleases, as well as numerous less-well-characterized small-molecule phosphodiesterases. The cyclic nucleotide phosphodiesterases comprise a group of enzymes that degrade the phosphodiester bond in the second messenger molecules cAMP and cGMP. They regulate the localization, duration, and amplitude of cyclic nucleotide signaling within subcellular domains. PDEs are therefore important regulators ofsignal transduction mediated by these second messenger molecules. www.MedChemExpress.com 1 Phosphodiesterase (PDE) Inhibitors, Activators & Modulators (+)-Medioresinol Di-O-β-D-glucopyranoside (R)-(-)-Rolipram Cat. No.: HY-N8209 ((R)-Rolipram; (-)-Rolipram) Cat. No.: HY-16900A (+)-Medioresinol Di-O-β-D-glucopyranoside is a (R)-(-)-Rolipram is the R-enantiomer of Rolipram. lignan glucoside with strong inhibitory activity Rolipram is a selective inhibitor of of 3', 5'-cyclic monophosphate (cyclic AMP) phosphodiesterases PDE4 with IC50 of 3 nM, 130 nM phosphodiesterase. and 240 nM for PDE4A, PDE4B, and PDE4D, respectively. Purity: >98% Purity: 99.91% Clinical Data: No Development Reported Clinical Data: No Development Reported Size: 1 mg, 5 mg Size: 10 mM × 1 mL, 10 mg, 50 mg (R)-DNMDP (S)-(+)-Rolipram Cat. No.: HY-122751 ((+)-Rolipram; (S)-Rolipram) Cat. No.: HY-B0392 (R)-DNMDP is a potent and selective cancer cell (S)-(+)-Rolipram ((+)-Rolipram) is a cyclic cytotoxic agent. (R)-DNMDP, the R-form of DNMDP, AMP(cAMP)-specific phosphodiesterase (PDE) binds PDE3A directly.
    [Show full text]
  • The Metabolic Serine Hydrolases and Their Functions in Mammalian Physiology and Disease Jonathan Z
    REVIEW pubs.acs.org/CR The Metabolic Serine Hydrolases and Their Functions in Mammalian Physiology and Disease Jonathan Z. Long* and Benjamin F. Cravatt* The Skaggs Institute for Chemical Biology and Department of Chemical Physiology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States CONTENTS 2.4. Other Phospholipases 6034 1. Introduction 6023 2.4.1. LIPG (Endothelial Lipase) 6034 2. Small-Molecule Hydrolases 6023 2.4.2. PLA1A (Phosphatidylserine-Specific 2.1. Intracellular Neutral Lipases 6023 PLA1) 6035 2.1.1. LIPE (Hormone-Sensitive Lipase) 6024 2.4.3. LIPH and LIPI (Phosphatidic Acid-Specific 2.1.2. PNPLA2 (Adipose Triglyceride Lipase) 6024 PLA1R and β) 6035 2.1.3. MGLL (Monoacylglycerol Lipase) 6025 2.4.4. PLB1 (Phospholipase B) 6035 2.1.4. DAGLA and DAGLB (Diacylglycerol Lipase 2.4.5. DDHD1 and DDHD2 (DDHD Domain R and β) 6026 Containing 1 and 2) 6035 2.1.5. CES3 (Carboxylesterase 3) 6026 2.4.6. ABHD4 (Alpha/Beta Hydrolase Domain 2.1.6. AADACL1 (Arylacetamide Deacetylase-like 1) 6026 Containing 4) 6036 2.1.7. ABHD6 (Alpha/Beta Hydrolase Domain 2.5. Small-Molecule Amidases 6036 Containing 6) 6027 2.5.1. FAAH and FAAH2 (Fatty Acid Amide 2.1.8. ABHD12 (Alpha/Beta Hydrolase Domain Hydrolase and FAAH2) 6036 Containing 12) 6027 2.5.2. AFMID (Arylformamidase) 6037 2.2. Extracellular Neutral Lipases 6027 2.6. Acyl-CoA Hydrolases 6037 2.2.1. PNLIP (Pancreatic Lipase) 6028 2.6.1. FASN (Fatty Acid Synthase) 6037 2.2.2. PNLIPRP1 and PNLIPR2 (Pancreatic 2.6.2.
    [Show full text]
  • PDE6) by the Glutamic Acid- Rich Protein-2 (GARP2)
    University of New Hampshire University of New Hampshire Scholars' Repository Doctoral Dissertations Student Scholarship Fall 2013 Regulation of the catalytic and allosteric properties of photoreceptor phosphodiesterase (PDE6) by the glutamic acid- rich protein-2 (GARP2) Wei Yao Follow this and additional works at: https://scholars.unh.edu/dissertation Recommended Citation Yao, Wei, "Regulation of the catalytic and allosteric properties of photoreceptor phosphodiesterase (PDE6) by the glutamic acid-rich protein-2 (GARP2)" (2013). Doctoral Dissertations. 747. https://scholars.unh.edu/dissertation/747 This Dissertation is brought to you for free and open access by the Student Scholarship at University of New Hampshire Scholars' Repository. It has been accepted for inclusion in Doctoral Dissertations by an authorized administrator of University of New Hampshire Scholars' Repository. For more information, please contact [email protected]. REGULATION OF THE CATALYTIC AND ALLOSTERIC PROPERTIES OF PHOTORECEPTOR PHOSPHODIESTERASE (PDE6) BY THE GLUTAMIC ACID-RICH PROTEIN-2 (GARP2) BY WEI YAO B.S., Jinan University, 2007 DISSERTATION Submitted to the University of New Hampshire in Partial Fulfillment of the Requirements for the Degree of Doctor of Philosophy in Biochemistry September, 2013 UMI Number: 3575987 All rights reserved INFORMATION TO ALL USERS The quality of this reproduction is dependent upon the quality of the copy submitted. In the unlikely event that the author did not send a complete manuscript and there are missing pages, these will be noted. Also, if material had to be removed, a note will indicate the deletion. Di!ss0?t&iori Piiblist’Mlg UMI 3575987 Published by ProQuest LLC 2013. Copyright in the Dissertation held by the Author.
    [Show full text]
  • Supplementary Table 3: Calcineurin- and Aging-Sensitive Genes
    Supplementary Table 3: Calcineurin- and Aging-Sensitive Genes Supplementary Table 3: Calcineurin up/ Aging up (pages 1 -2)- genes classified as Ad-aCaN up in the present study (see Supplementary Table 1), as well as reported as significantly increased in our prior aging study (Blalock et al., 2003, see supplementary tables 3, 4 and 5). Calcineurin Down/ Aging Down (page 2), Calcineurin Up/ Aging Down (pages 2-3),and Calcineurin Down/Aging Up (page 3)as above except for direction of change. - Columns: Probe Set- Affymetrix probe set identifier for RG-U34A microarray, Symbol and Title- annotated information for above probe set (annotation downloaded June, 2004), Calcineurin ANOVA- p-value for 1-way Analysis of Variance. Calcineurin Up/Aging Up Probe set Symbol Title CaN ANOVA rc_AI170268_at B2m beta-2 microglobulin 0.00000 rc_AI102299_s_at Bid3 BH3 interacting domain 3 0.00721 X52477_at C3 complement component 3 0.00000 X58294_at Ca2 carbonic anhydrase 2 0.00004 X76489cds_g_at Cd9 CD9 antigen 0.00000 L07736_at Cpt1a carnitine palmitoyltransferase 1, liver 0.00001 M55534mRNA_s_at Cryab crystallin, alpha B 0.00000 X60351cds_s_at Cryab crystallin, alpha B 0.00000 rc_AI234146_at Csrp1 cysteine and glycine-rich protein 1 0.00000 rc_AI176595_s_at Ctsl cathepsin L 0.00001 D00569_at Decr1 2,4-dienoyl CoA reductase 1, mitochondrial 0.00000 rc_AA924925_at Dri42 ER transmembrane protein Dri 42 0.00000 rc_AA848831_at Edg2 endothelial differentiation, lysophosphatidic acid GPCR, 2 0.00000 X14323cds_g_at Fcgrt Fc receptor, IgG, alpha chain transporter
    [Show full text]
  • Modulation of the Camp Levels with a Conserved Actinobacteria Phosphodiesterase 2 Enzyme Reduces Antimicrobial Tolerance in Mycobacteria
    bioRxiv preprint doi: https://doi.org/10.1101/2020.08.26.267864; this version posted August 26, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 1 Modulation of the cAMP levels with a conserved actinobacteria phosphodiesterase 2 enzyme reduces antimicrobial tolerance in mycobacteria 3 4 Michael Thomson1, Kanokkan Nunta1, Ashleigh Cheyne1, Yi liu1, Acely Garza-Garcia2 and 5 Gerald Larrouy-Maumus1† 6 7 1MRC Centre for Molecular Bacteriology and Infection, Department of Life Sciences, 8 Faculty of Natural Sciences, Imperial College London, London, SW7 2AZ, UK 9 2The Francis Crick Institute, London NW1 1AT, United Kingdom. 10 11 †Corresponding author: 12 13 Dr Gerald Larrouy-Maumus 14 MRC Centre for Molecular Bacteriology and Infection, Department of Life Sciences, Faculty 15 of Natural Sciences, Imperial College London, London, SW7 2AZ, UK 16 Telephone: +44 (0) 2075 947463 17 E-mail: [email protected] 18 19 20 1 e ag P 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.08.26.267864; this version posted August 26, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 21 Abstract 22 Antimicrobial tolerance (AMT) is the gateway to the development of antimicrobial resistance 23 (AMR) and is therefore a major issue that needs to be addressed. 24 The second messenger cyclic-AMP (cAMP), which is conserved across all taxa, is involved 25 in propagating signals from environmental stimuli and converting these into a response.
    [Show full text]
  • Geochemical Influences on Nonenzymatic Oligomerization Of
    bioRxiv preprint doi: https://doi.org/10.1101/872234; this version posted December 11, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Geochemical influences on nonenzymatic oligomerization of prebiotically relevant cyclic nucleotides Authors: Shikha Dagar‡, Susovan Sarkar‡, Sudha Rajamani‡* ‡ Department of Biology, Indian Institute of Science Education and Research, Pune 411008, India Correspondence: [email protected]; Tel.: +91-20-2590-8061 Running title: Cyclic nucleotides and emergence of an RNA World Key words: Dehydration-rehydration cycles, lipid-assisted oligomerization, cyclic nucleotides, analogue environments Dagar, S. 1 bioRxiv preprint doi: https://doi.org/10.1101/872234; this version posted December 11, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Abstract The spontaneous emergence of RNA on the early Earth continues to remain an enigma in the field of origins of life. Few studies have looked at the nonenzymatic oligomerization of cyclic nucleotides under neutral to alkaline conditions, in fully dehydrated state. Herein, we systematically investigated the oligomerization of cyclic nucleotides under prebiotically relevant conditions, where starting reactants were subjected to repeated dehydration-rehydration (DH- RH) regimes, like they would have been on an early Earth. DH-RH conditions, a recurring geological theme, are driven by naturally occurring processes including diurnal cycles and tidal pool activity. These conditions have been shown to facilitate uphill oligomerization reactions in terrestrial geothermal niches, which are hypothesized to be pertinent sites for the emergence of life.
    [Show full text]
  • Oxidative Stress and the Guanosine Nucleotide Triphosphate Pool: Implications for a Biomarker and Mechanism of Impaired Cell Function
    University of Montana ScholarWorks at University of Montana Graduate Student Theses, Dissertations, & Professional Papers Graduate School 2008 OXIDATIVE STRESS AND THE GUANOSINE NUCLEOTIDE TRIPHOSPHATE POOL: IMPLICATIONS FOR A BIOMARKER AND MECHANISM OF IMPAIRED CELL FUNCTION Celeste Maree Bolin The University of Montana Follow this and additional works at: https://scholarworks.umt.edu/etd Let us know how access to this document benefits ou.y Recommended Citation Bolin, Celeste Maree, "OXIDATIVE STRESS AND THE GUANOSINE NUCLEOTIDE TRIPHOSPHATE POOL: IMPLICATIONS FOR A BIOMARKER AND MECHANISM OF IMPAIRED CELL FUNCTION" (2008). Graduate Student Theses, Dissertations, & Professional Papers. 728. https://scholarworks.umt.edu/etd/728 This Dissertation is brought to you for free and open access by the Graduate School at ScholarWorks at University of Montana. It has been accepted for inclusion in Graduate Student Theses, Dissertations, & Professional Papers by an authorized administrator of ScholarWorks at University of Montana. For more information, please contact [email protected]. OXIDATIVE STRESS AND THE GUANOSINE NUCLEOTIDE TRIPHOSPHATE POOL: IMPLICATIONS FOR A BIOMARKER AND MECHANISM OF IMPAIRED CELL FUNCTION By Celeste Maree Bolin B.A. Chemistry, Whitman College, Walla Walla, WA 2001 Dissertation presented in partial fulfillment of the requirements for the degree of Doctor of Philosophy in Toxicology The University of Montana Missoula, Montana Spring 2008 Approved by: Dr. David A. Strobel, Dean Graduate School Dr. Fernando Cardozo-Pelaez,
    [Show full text]
  • 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.
    [Show full text]
  • Development of Phosphodiesterase-Protein Kinase Complexes As Novel Targets for Discovery of Inhibitors with Enhanced Spec- Ificity
    Preprints (www.preprints.org) | NOT PEER-REVIEWED | Posted: 6 April 2021 doi:10.20944/preprints202104.0174.v1 Article Development of Phosphodiesterase-Protein Kinase complexes as novel targets for discovery of inhibitors with enhanced spec- ificity Nikhil K. Tulsian 1,2, Valerie Jia-En Sin 3, Hwee-Ling Koh 3,*, Ganesh S. Anand 1,4,* 1 Department of Biological Sciences, 14 Science Drive 4, National University of Singapore, Singapore – 117543 2 Department of Biochemistry, 28 Medical Drive, National University of Singapore, Singapore – 117546 3 Department of Pharmacy, 18 Science Drive 4, National University of Singapore, Singapore – 117543 4 Department of Chemistry, The Pennsylvania State University, Philadelphia, United States of America - 16801 * Correspondence: KHL: [email protected]; Tel.: +6565167962; GSA: [email protected]; Tel.: 814-867-1944 Abstract: Phosphodiesterases (PDEs) hydrolyze cyclic nucleotides to modulate multiple signaling events in cells. PDEs are recognized to actively associate with cyclic nucleotide receptors (Protein Kinases, PK) in larger macromolecular assemblies referred to as signalosomes. Complexation of PDEs with PK generates an expanded active site which enhances PDE activity. This facilitates signal- osome-associated PDEs to preferentially catalyze active hydrolysis of cyclic nucleotides bound to PK, and aid in signal termination. PDEs are important drug targets and current strategies for inhib- itor discovery are based entirely on targeting conserved PDE catalytic domains. This often results in inhibitors with cross-reactivity amongst closely related PDEs and attendant unwanted side ef- fects. Here, our approach targets PDE-PK complexes as they would occur in signalosomes, thereby offering greater specificity. Our developed fluorescence polarization assay has been adapted to identify inhibitors that block cyclic nucleotide pockets in PDE-PK complexes in one mode, and dis- rupt protein-protein interactions between PDEs and cyclic nucleotide activating protein kinases in a second mode.
    [Show full text]