Literature DB >> 28622506

Dynamic RNA Modifications in Gene Expression Regulation.

Ian A Roundtree1, Molly E Evans2, Tao Pan3, Chuan He4.   

Abstract

Over 100 types of chemical modifications have been identified in cellular RNAs. While the 5' cap modification and the poly(A) tail of eukaryotic mRNA play key roles in regulation, internal modifications are gaining attention for their roles in mRNA metabolism. The most abundant internal mRNA modification is N6-methyladenosine (m6A), and identification of proteins that install, recognize, and remove this and other marks have revealed roles for mRNA modification in nearly every aspect of the mRNA life cycle, as well as in various cellular, developmental, and disease processes. Abundant noncoding RNAs such as tRNAs, rRNAs, and spliceosomal RNAs are also heavily modified and depend on the modifications for their biogenesis and function. Our understanding of the biological contributions of these different chemical modifications is beginning to take shape, but it's clear that in both coding and noncoding RNAs, dynamic modifications represent a new layer of control of genetic information. Published by Elsevier Inc.

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Year:  2017        PMID: 28622506      PMCID: PMC5657247          DOI: 10.1016/j.cell.2017.05.045

Source DB:  PubMed          Journal:  Cell        ISSN: 0092-8674            Impact factor:   41.582


  139 in total

1.  N(6)-methyladenosine Modulates Messenger RNA Translation Efficiency.

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

2.  m(6)A RNA modification controls cell fate transition in mammalian embryonic stem cells.

Authors:  Pedro J Batista; Benoit Molinie; Jinkai Wang; Kun Qu; Jiajing Zhang; Lingjie Li; Donna M Bouley; Ernesto Lujan; Bahareh Haddad; Kaveh Daneshvar; Ava C Carter; Ryan A Flynn; Chan Zhou; Kok-Seong Lim; Peter Dedon; Marius Wernig; Alan C Mullen; Yi Xing; Cosmas C Giallourakis; Howard Y Chang
Journal:  Cell Stem Cell       Date:  2014-10-16       Impact factor: 24.633

3.  YTHDF3 facilitates translation and decay of N6-methyladenosine-modified RNA.

Authors:  Hailing Shi; Xiao Wang; Zhike Lu; Boxuan S Zhao; Honghui Ma; Phillip J Hsu; Chang Liu; Chuan He
Journal:  Cell Res       Date:  2017-01-20       Impact factor: 25.617

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

Authors:  Kai Chen; Zhike Lu; Xiao Wang; Ye Fu; Guan-Zheng Luo; Nian Liu; Dali Han; Dan Dominissini; Qing Dai; Tao Pan; Chuan He
Journal:  Angew Chem Int Ed Engl       Date:  2014-12-09       Impact factor: 15.336

5.  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

6.  Effect of undermethylation on mRNA cytoplasmic appearance and half-life.

Authors:  S A Camper; R J Albers; J K Coward; F M Rottman
Journal:  Mol Cell Biol       Date:  1984-03       Impact factor: 4.272

7.  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

8.  FTO-dependent demethylation of N6-methyladenosine regulates mRNA splicing and is required for adipogenesis.

Authors:  Xu Zhao; Ying Yang; Bao-Fa Sun; Yue Shi; Xin Yang; Wen Xiao; Ya-Juan Hao; Xiao-Li Ping; Yu-Sheng Chen; Wen-Jia Wang; Kang-Xuan Jin; Xing Wang; Chun-Min Huang; Yu Fu; Xiao-Meng Ge; Shu-Hui Song; Hyun Seok Jeong; Hiroyuki Yanagisawa; Yamei Niu; Gui-Fang Jia; Wei Wu; Wei-Min Tong; Akimitsu Okamoto; Chuan He; Jannie M Rendtlew Danielsen; Xiu-Jie Wang; Yun-Gui Yang
Journal:  Cell Res       Date:  2014-11-21       Impact factor: 25.617

9.  5-methylcytosine promotes mRNA export - NSUN2 as the methyltransferase and ALYREF as an m5C reader.

Authors:  Xin Yang; Ying Yang; Bao-Fa Sun; Yu-Sheng Chen; Jia-Wei Xu; Wei-Yi Lai; Ang Li; Xing Wang; Devi Prasad Bhattarai; Wen Xiao; Hui-Ying Sun; Qin Zhu; Hai-Li Ma; Samir Adhikari; Min Sun; Ya-Juan Hao; Bing Zhang; Chun-Min Huang; Niu Huang; Gui-Bin Jiang; Yong-Liang Zhao; Hai-Lin Wang; Ying-Pu Sun; Yun-Gui Yang
Journal:  Cell Res       Date:  2017-04-18       Impact factor: 25.617

10.  Transcription Impacts the Efficiency of mRNA Translation via Co-transcriptional N6-adenosine Methylation.

Authors:  Boris Slobodin; Ruiqi Han; Vittorio Calderone; Joachim A F Oude Vrielink; Fabricio Loayza-Puch; Ran Elkon; Reuven Agami
Journal:  Cell       Date:  2017-04-06       Impact factor: 41.582

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  822 in total

Review 1.  The Untranslated Regions of mRNAs in Cancer.

Authors:  Samantha L Schuster; Andrew C Hsieh
Journal:  Trends Cancer       Date:  2019-03-22

2.  5-Methylcytosine RNA Modifications Promote Retrovirus Replication in an ALYREF Reader Protein-Dependent Manner.

Authors:  Matthew Eckwahl; Ruyi Xu; Julia Michalkiewicz; Wen Zhang; Pooja Patel; Zhen Cai; Tao Pan
Journal:  J Virol       Date:  2020-06-16       Impact factor: 5.103

3.  Genome, Epigenome, and Transcriptome Editing via Chemical Modification of Nucleobases in Living Cells.

Authors:  Brodie L Ranzau; Alexis C Komor
Journal:  Biochemistry       Date:  2018-12-12       Impact factor: 3.162

Review 4.  RNA Biology in Retinal Development and Disease.

Authors:  Lina Zelinger; Anand Swaroop
Journal:  Trends Genet       Date:  2018-01-31       Impact factor: 11.639

Review 5.  Heterogeneity and specialized functions of translation machinery: from genes to organisms.

Authors:  Naomi R Genuth; Maria Barna
Journal:  Nat Rev Genet       Date:  2018-07       Impact factor: 53.242

6.  Xio is a component of the Drosophila sex determination pathway and RNA N6-methyladenosine methyltransferase complex.

Authors:  Jian Guo; Hong-Wen Tang; Jing Li; Norbert Perrimon; Dong Yan
Journal:  Proc Natl Acad Sci U S A       Date:  2018-03-19       Impact factor: 11.205

Review 7.  The Discovery of Ribosome Heterogeneity and Its Implications for Gene Regulation and Organismal Life.

Authors:  Naomi R Genuth; Maria Barna
Journal:  Mol Cell       Date:  2018-08-02       Impact factor: 17.970

8.  Responsive fluorescent nucleotides serve as efficient substrates to probe terminal uridylyl transferase.

Authors:  Jerrin Thomas George; Seergazhi G Srivatsan
Journal:  Chem Commun (Camb)       Date:  2020-09-17       Impact factor: 6.222

9.  The N1-Methyladenosine Methylome of Petunia mRNA.

Authors:  Weiyuan Yang; Jie Meng; Juanxu Liu; Beibei Ding; Tao Tan; Qian Wei; Yixun Yu
Journal:  Plant Physiol       Date:  2020-05-27       Impact factor: 8.340

10.  Sequence-Independent Self-Assembly of Germ Granule mRNAs into Homotypic Clusters.

Authors:  Tatjana Trcek; Tyler E Douglas; Markus Grosch; Yandong Yin; Whitby V I Eagle; Elizabeth R Gavis; Hari Shroff; Eli Rothenberg; Ruth Lehmann
Journal:  Mol Cell       Date:  2020-05-27       Impact factor: 17.970

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