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Title: An Improved Strategy for the Chemical Synthesis of 3′,5′‐Cyclic Diguanylic Acid

Abstract

Abstract The physiological functions of c‐di‐GMP and its involvement in many key processes led to its recognition as a major and ubiquitous bacterial second messenger. Aside from being a bacterial signaling molecule, c‐di‐GMP is also an immunostimulatory molecule capable of inducing innate and adaptive immune responses through maturation of immune mammalian cells. Given the broad biological functions of c‐di‐GMP and its potential applications as a nucleic‐acid‐based drug, the chemical synthesis of c‐di‐GMP has drawn considerable interest. An improved phosphoramidite approach to the synthesis of c‐di‐GMP is reported herein. The synthetic approach is based on the use of a 5′‐ O ‐formyl protecting group, which can be rapidly and chemoselectively cleaved from a key dinucleotide phosphoramidite intermediate to enable a cyclocondensation reaction leading to a fully protected c‐di‐GMP product in a yield ∼80%. The native c‐di‐GMP is isolated, after complete deprotection, in an overall yield of 36% based on the commercial ribonucleoside used as starting material. © 2019 by John Wiley & Sons, Inc.

Authors:
 [1];  [1];  [1];  [2];  [1]
  1. Laboratory of Biological Chemistry, Food and Drug Administration Silver Spring Maryland
  2. ChemGenes Corporation Wilmington Massachusetts
Publication Date:
Sponsoring Org.:
USDOE
OSTI Identifier:
1506162
Resource Type:
Publisher's Accepted Manuscript
Journal Name:
Current Protocols in Nucleic Acid Chemistry
Additional Journal Information:
Journal Name: Current Protocols in Nucleic Acid Chemistry Journal Volume: 77 Journal Issue: 1; Journal ID: ISSN 1934-9270
Publisher:
Wiley Blackwell (John Wiley & Sons)
Country of Publication:
Country unknown/Code not available
Language:
English

Citation Formats

Grajkowski, Andrzej, Takahashi, Mayumi, Kaczyński, Tomasz, Srivastava, Suresh C., and Beaucage, Serge L. An Improved Strategy for the Chemical Synthesis of 3′,5′‐Cyclic Diguanylic Acid. Country unknown/Code not available: N. p., 2019. Web. doi:10.1002/cpnc.84.
Grajkowski, Andrzej, Takahashi, Mayumi, Kaczyński, Tomasz, Srivastava, Suresh C., & Beaucage, Serge L. An Improved Strategy for the Chemical Synthesis of 3′,5′‐Cyclic Diguanylic Acid. Country unknown/Code not available. https://doi.org/10.1002/cpnc.84
Grajkowski, Andrzej, Takahashi, Mayumi, Kaczyński, Tomasz, Srivastava, Suresh C., and Beaucage, Serge L. Wed . "An Improved Strategy for the Chemical Synthesis of 3′,5′‐Cyclic Diguanylic Acid". Country unknown/Code not available. https://doi.org/10.1002/cpnc.84.
@article{osti_1506162,
title = {An Improved Strategy for the Chemical Synthesis of 3′,5′‐Cyclic Diguanylic Acid},
author = {Grajkowski, Andrzej and Takahashi, Mayumi and Kaczyński, Tomasz and Srivastava, Suresh C. and Beaucage, Serge L.},
abstractNote = {Abstract The physiological functions of c‐di‐GMP and its involvement in many key processes led to its recognition as a major and ubiquitous bacterial second messenger. Aside from being a bacterial signaling molecule, c‐di‐GMP is also an immunostimulatory molecule capable of inducing innate and adaptive immune responses through maturation of immune mammalian cells. Given the broad biological functions of c‐di‐GMP and its potential applications as a nucleic‐acid‐based drug, the chemical synthesis of c‐di‐GMP has drawn considerable interest. An improved phosphoramidite approach to the synthesis of c‐di‐GMP is reported herein. The synthetic approach is based on the use of a 5′‐ O ‐formyl protecting group, which can be rapidly and chemoselectively cleaved from a key dinucleotide phosphoramidite intermediate to enable a cyclocondensation reaction leading to a fully protected c‐di‐GMP product in a yield ∼80%. The native c‐di‐GMP is isolated, after complete deprotection, in an overall yield of 36% based on the commercial ribonucleoside used as starting material. © 2019 by John Wiley & Sons, Inc.},
doi = {10.1002/cpnc.84},
journal = {Current Protocols in Nucleic Acid Chemistry},
number = 1,
volume = 77,
place = {Country unknown/Code not available},
year = {Wed Apr 10 00:00:00 EDT 2019},
month = {Wed Apr 10 00:00:00 EDT 2019}
}

Works referenced in this record:

Bacterial c-di-GMP Is an Immunostimulatory Molecule
journal, February 2007


Regulation of cellulose synthesis in Acetobacter xylinum by cyclic diguanylic acid
journal, January 1987

  • Ross, P.; Weinhouse, H.; Aloni, Y.
  • Nature, Vol. 325, Issue 6101
  • DOI: 10.1038/325279a0

(3′-5′)-Cyclic Dinucleotides: Synthetic Strategies and Biological Potential
journal, June 2013

  • Clivio, Pascale; Coantic-Castex, Stéphanie; Guillaume, Dominique
  • Chemical Reviews, Vol. 113, Issue 10
  • DOI: 10.1021/cr300011s

Deoxyribonucleoside Phosphoramidites
journal, April 2001

  • Wilk, Andrzej; Grajkowski, Andrzej; Chmielewski, Marcin K.
  • Current Protocols in Nucleic Acid Chemistry, Vol. 4, Issue 1
  • DOI: 10.1002/0471142700.nc0207s04

Targeting Cyclic di-GMP Signalling: A Strategy to Control Biofilm Formation?
journal, November 2014


An improved phosphoramidite approach for the chemical synthesis of 3′,5′-cyclic diguanylic acid
journal, January 2019


Cutting Edge: Activation of STING in T Cells Induces Type I IFN Responses and Cell Death
journal, June 2017

  • Larkin, Bridget; Ilyukha, Vladimir; Sorokin, Maxim
  • The Journal of Immunology, Vol. 199, Issue 2
  • DOI: 10.4049/jimmunol.1601999

Secreted Cyclic Di-GMP Induces Stalk Cell Differentiation in the Eukaryote Dictyostelium discoideum
journal, May 2015

  • Chen, Zhi-hui; Schaap, Pauline
  • Journal of Bacteriology, Vol. 198, Issue 1
  • DOI: 10.1128/JB.00321-15

Agonist-Mediated Activation of STING Induces Apoptosis in Malignant B Cells
journal, March 2016


The 2-( N- Formyl- N- methyl)aminoethyl Group as a Potential Phosphate/Thiophosphate Protecting Group in Solid-Phase Oligodeoxyribonucleotide Synthesis
journal, May 2001

  • Grajkowski, Andrzej; Wilk, Andrzej; Chmielewski, Marcin K.
  • Organic Letters, Vol. 3, Issue 9
  • DOI: 10.1021/ol0156852

STING is a direct innate immune sensor of cyclic di-GMP
journal, September 2011

  • Burdette, Dara L.; Monroe, Kathryn M.; Sotelo-Troha, Katia
  • Nature, Vol. 478, Issue 7370
  • DOI: 10.1038/nature10429

Thin‐Layer Chromatography
journal, September 2008


Formyloxy-acetonitrile - a reagent for convenientN- andO-formylations
journal, January 1996

  • Deutsch, J.; Duczek, W.; Niclas, Hans-Joachim
  • Journal f�r Praktische Chemie/Chemiker-Zeitung, Vol. 338, Issue 1
  • DOI: 10.1002/prac.19963380192

Isomerization of tert-butyldimethylsilyl protecting groups in ribonucleosides
journal, March 1981


Synthesis of Cyclic Dinucleotides by an H-Phosphonate Method in Solution
journal, November 1996


CisTrans Amide Bond Rotamers in β-Peptoids and Peptoids: Evaluation of Stereoelectronic Effects in Backbone and Side Chains
journal, February 2013

  • Laursen, Jonas S.; Engel-Andreasen, Jens; Fristrup, Peter
  • Journal of the American Chemical Society, Vol. 135, Issue 7
  • DOI: 10.1021/ja312532x

A facile synthesis of cyclic bis(3′→5′)diguanylic acid
journal, August 2003


Convenient Synthesis of a Propargylated Cyclic (3′-5′) Diguanylic Acid and Its “Click” Conjugation to a Biotinylated Azide
journal, November 2010

  • Grajkowski, Andrzej; Cieślak, Jacek; Gapeev, Alexei
  • Bioconjugate Chemistry, Vol. 21, Issue 11
  • DOI: 10.1021/bc1003857

Synthesis of cyclic di-nucleotidic acids as potential inhibitors targeting diguanylate cyclase
journal, September 2010

  • Ching, Shi Min; Tan, Wan Jun; Chua, Kim Lee
  • Bioorganic & Medicinal Chemistry, Vol. 18, Issue 18
  • DOI: 10.1016/j.bmc.2010.07.068

Column Chromatography
journal, December 2000


3′,5′-Cyclic diguanylic acid elicits mucosal immunity against bacterial infection
journal, September 2009

  • Yan, Hongbin; KuoLee, Rhonda; Tram, Kha
  • Biochemical and Biophysical Research Communications, Vol. 387, Issue 3
  • DOI: 10.1016/j.bbrc.2009.07.061

One-Flask Syntheses of c-di-GMP and the [ R p , R p ] and [ R p , S p ] Thiophosphate Analogues
journal, July 2010

  • Gaffney, Barbara L.; Veliath, Elizabeth; Zhao, Jianwei
  • Organic Letters, Vol. 12, Issue 14
  • DOI: 10.1021/ol101236b