Literature DB >> 28102265

Chemical and structural effects of base modifications in messenger RNA.

Emily M Harcourt1, Anna M Kietrys2, Eric T Kool2.   

Abstract

A growing number of nucleobase modifications in messenger RNA have been revealed through advances in detection and RNA sequencing. Although some of the biochemical pathways that involve modified bases have been identified, research into the world of RNA modification - the epitranscriptome - is still in an early phase. A variety of chemical tools are being used to characterize base modifications, and the structural effects of known base modifications on RNA pairing, thermodynamics and folding are being determined in relation to their putative biological roles.

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Year:  2017        PMID： 28102265      PMCID： PMC5498787          DOI： 10.1038/nature21351

Source DB:  PubMed          Journal:  Nature        ISSN： 0028-0836            Impact factor:   49.962


  98 in total

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Authors:  Xiao Wang; Boxuan Simen Zhao; Ian A Roundtree; Zhike Lu; Dali Han; Honghui Ma; Xiaocheng Weng; Kai Chen; Hailing Shi; Chuan He
Journal:  Cell       Date:  2015-06-04       Impact factor: 41.582

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Journal:  Cell       Date:  2012-05-17       Impact factor: 41.582

4.  High-resolution N(6) -methyladenosine (m(6) A) map using photo-crosslinking-assisted m(6) A sequencing.

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Journal:  Angew Chem Int Ed Engl       Date:  2014-12-09       Impact factor: 15.336

5.  Effect of 1-methyladenine on thermodynamic stabilities of double-helical DNA structures.

Authors:  Hao Yang; Sik Lok Lam
Journal:  FEBS Lett       Date:  2009-04-17       Impact factor: 4.124

6.  RNA biochemistry. Transcriptome-wide distribution and function of RNA hydroxymethylcytosine.

Authors:  Benjamin Delatte; Fei Wang; Long Vo Ngoc; Evelyne Collignon; Elise Bonvin; Rachel Deplus; Emilie Calonne; Bouchra Hassabi; Pascale Putmans; Stephan Awe; Collin Wetzel; Judith Kreher; Romuald Soin; Catherine Creppe; Patrick A Limbach; Cyril Gueydan; Véronique Kruys; Alexander Brehm; Svetlana Minakhina; Matthieu Defrance; Ruth Steward; François Fuks
Journal:  Science       Date:  2016-01-15       Impact factor: 47.728

7.  Origins of the large differences in stability of DNA and RNA helices: C-5 methyl and 2'-hydroxyl effects.

Authors:  S Wang; E T Kool
Journal:  Biochemistry       Date:  1995-03-28       Impact factor: 3.162

8.  Single-nucleotide-resolution mapping of m6A and m6Am throughout the transcriptome.

Authors:  Bastian Linder; Anya V Grozhik; Anthony O Olarerin-George; Cem Meydan; Christopher E Mason; Samie R Jaffrey
Journal:  Nat Methods       Date:  2015-06-29       Impact factor: 28.547

9.  Transcriptome-wide mapping of pseudouridines: pseudouridine synthases modify specific mRNAs in S. cerevisiae.

Authors:  Alexander F Lovejoy; Daniel P Riordan; Patrick O Brown
Journal:  PLoS One       Date:  2014-10-29       Impact factor: 3.240

10.  m(1)A and m(1)G disrupt A-RNA structure through the intrinsic instability of Hoogsteen base pairs.

Authors:  Huiqing Zhou; Isaac J Kimsey; Evgenia N Nikolova; Bharathwaj Sathyamoorthy; Gianmarc Grazioli; James McSally; Tianyu Bai; Christoph H Wunderlich; Christoph Kreutz; Ioan Andricioaei; Hashim M Al-Hashimi
Journal:  Nat Struct Mol Biol       Date:  2016-08-01       Impact factor: 15.369
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  62 in total

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Journal:  Mol Ther       Date:  2019-03-06       Impact factor: 11.454

2.  Direct Sequencing of tRNA by 2D-HELS-AA MS Seq Reveals Its Different Isoforms and Dynamic Base Modifications.

Authors:  Ning Zhang; Shundi Shi; Xuanting Wang; Wenhao Ni; Xiaohong Yuan; Jiachen Duan; Tony Z Jia; Barney Yoo; Ashley Ziegler; James J Russo; Wenjia Li; Shenglong Zhang
Journal:  ACS Chem Biol       Date:  2020-05-19       Impact factor: 5.100

3.  Nucleotide resolution sequencing of N4-acetylcytidine in RNA.

Authors:  Justin M Thomas; Keri M Bryson; Jordan L Meier
Journal:  Methods Enzymol       Date:  2019-03-12       Impact factor: 1.600

Review 4.  The roles of structural dynamics in the cellular functions of RNAs.

Authors:  Laura R Ganser; Megan L Kelly; Daniel Herschlag; Hashim M Al-Hashimi
Journal:  Nat Rev Mol Cell Biol       Date:  2019-08       Impact factor: 94.444

Review 5.  Functional 5' UTR mRNA structures in eukaryotic translation regulation and how to find them.

Authors:  Kathrin Leppek; Rhiju Das; Maria Barna
Journal:  Nat Rev Mol Cell Biol       Date:  2017-11-22       Impact factor: 94.444

6.  Distinguishing RNA modifications from noise in epitranscriptome maps.

Authors:  Anya V Grozhik; Samie R Jaffrey
Journal:  Nat Chem Biol       Date:  2018-02-14       Impact factor: 15.040

7.  Regulation of Protein Activity and Cellular Functions Mediated by Molecularly Evolved Nucleic Acids.

Authors:  Jie Tan; Mengmeng Zhao; Jie Wang; Zhihao Li; Ling Liang; Liqin Zhang; Quan Yuan; Weihong Tan
Journal:  Angew Chem Int Ed Engl       Date:  2019-01-14       Impact factor: 15.336

8.  Structural Elucidation of Bisulfite Adducts to Pseudouridine That Result in Deletion Signatures during Reverse Transcription of RNA.

Authors:  Aaron M Fleming; Anton Alenko; Jay P Kitt; Anita M Orendt; Peter F Flynn; Joel M Harris; Cynthia J Burrows
Journal:  J Am Chem Soc       Date:  2019-10-02       Impact factor: 15.419

9.  Fingerprints of Modified RNA Bases from Deep Sequencing Profiles.

Authors:  Anna M Kietrys; Willem A Velema; Eric T Kool
Journal:  J Am Chem Soc       Date:  2017-11-17       Impact factor: 15.419

10.  N6-Allyladenosine: A New Small Molecule for RNA Labeling Identified by Mutation Assay.

Authors:  Xiao Shu; Qing Dai; Tong Wu; Ian R Bothwell; Yanan Yue; Zezhou Zhang; Jie Cao; Qili Fei; Minkui Luo; Chuan He; Jianzhao Liu
Journal:  J Am Chem Soc       Date:  2017-11-15       Impact factor: 15.419
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