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Literature DB >> 27140282

RNA modifications: what have we learned and where are we headed?

Michaela Frye¹, Samie R Jaffrey², Tao Pan³, Gideon Rechavi⁴, Tsutomu Suzuki⁵.

Abstract

Proper control of the transcriptome is key for diverse aspects of gene expression, cellular functions and development, and its disruption can result in disease. A rapidly accumulating wealth of studies are identifying and functionally characterizing diverse types of RNA base modifications in protein-coding and non-coding RNAs, which have energized the emerging field of 'epitranscriptomics'. In this Viewpoint article, five experts discuss our latest understanding of RNA modifications, including recommendations for best practices and visions for the future.

Entities: Chemical

Mesh：

Substances：
RNA, Long Noncoding
RNA

Year: 2016 PMID： 27140282 DOI： 10.1038/nrg.2016.47

Source DB: PubMed Journal: Nat Rev Genet ISSN： 1471-0056 Impact factor: 53.242

43 in total

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Journal: Bioessays Date: 2010-06 Impact factor: 4.345

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

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Journal: Cell Stem Cell Date: 2014-10-16 Impact factor: 24.633

3. Comprehensive analysis of mRNA methylation reveals enrichment in 3' UTRs and near stop codons.

Authors: Kate D Meyer; Yogesh Saletore; Paul Zumbo; Olivier Elemento; Christopher E Mason; Samie R Jaffrey
Journal: Cell Date: 2012-05-17 Impact factor: 41.582

Review 4. Human mitochondrial tRNAs: biogenesis, function, structural aspects, and diseases.

Authors: Tsutomu Suzuki; Asuteka Nagao; Takeo Suzuki
Journal: Annu Rev Genet Date: 2011-09-06 Impact factor: 16.830

5. 5' UTR m(6)A Promotes Cap-Independent Translation.

Authors: Kate D Meyer; Deepak P Patil; Jun Zhou; Alexandra Zinoviev; Maxim A Skabkin; Olivier Elemento; Tatyana V Pestova; Shu-Bing Qian; Samie R Jaffrey
Journal: Cell Date: 2015-10-22 Impact factor: 41.582

6. N6-methyladenosine in nuclear RNA is a major substrate of the obesity-associated FTO.

Authors: Guifang Jia; Ye Fu; Xu Zhao; Qing Dai; Guanqun Zheng; Ying Yang; Chengqi Yi; Tomas Lindahl; Tao Pan; Yun-Gui Yang; Chuan He
Journal: Nat Chem Biol Date: 2011-10-16 Impact factor: 15.040

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. High-resolution mapping reveals a conserved, widespread, dynamic mRNA methylation program in yeast meiosis.

Authors: Schraga Schwartz; Sudeep D Agarwala; Maxwell R Mumbach; Marko Jovanovic; Philipp Mertins; Alexander Shishkin; Yuval Tabach; Tarjei S Mikkelsen; Rahul Satija; Gary Ruvkun; Steven A Carr; Eric S Lander; Gerald R Fink; Aviv Regev
Journal: Cell Date: 2013-11-21 Impact factor: 41.582

9. RNA cytosine methylation by Dnmt2 and NSun2 promotes tRNA stability and protein synthesis.

Authors: Francesca Tuorto; Reinhard Liebers; Tanja Musch; Matthias Schaefer; Sarah Hofmann; Stefanie Kellner; Michaela Frye; Mark Helm; Georg Stoecklin; Frank Lyko
Journal: Nat Struct Mol Biol Date: 2012-08-12 Impact factor: 15.369

Review 10. Characterizing 5-methylcytosine in the mammalian epitranscriptome.

Authors: Shobbir Hussain; Jelena Aleksic; Sandra Blanco; Sabine Dietmann; Michaela Frye
Journal: Genome Biol Date: 2013-11-29 Impact factor: 13.583

93 in total

1. deepEA: a containerized web server for interactive analysis of epitranscriptome sequencing data.

Authors: Jingjing Zhai; Jie Song; Ting Zhang; Shang Xie; Chuang Ma
Journal: Plant Physiol Date: 2021-02-25 Impact factor: 8.340

Review 2. Cross-species RNA-seq for deciphering host-microbe interactions.

Authors: Alexander J Westermann; Jörg Vogel
Journal: Nat Rev Genet Date: 2021-02-17 Impact factor: 53.242

Review 3. Neuropathology of suicide: recent findings and future directions.

Authors: P-E Lutz; N Mechawar; G Turecki
Journal: Mol Psychiatry Date: 2017-07-11 Impact factor: 15.992

Review 4. Detecting RNA modifications in the epitranscriptome: predict and validate.

Authors: Mark Helm; Yuri Motorin
Journal: Nat Rev Genet Date: 2017-02-20 Impact factor: 53.242

Review 5. Regulatory feedback from nascent RNA to chromatin and transcription.

Authors: Lenka Skalska; Manuel Beltran-Nebot; Jernej Ule; Richard G Jenner
Journal: Nat Rev Mol Cell Biol Date: 2017-03-08 Impact factor: 94.444

Review 6. Epigenetic paternal effects as costly, condition-dependent traits.

Authors: Erin L Macartney; Angela J Crean; Russell Bonduriansky
Journal: Heredity (Edinb) Date: 2018-06-14 Impact factor: 3.821

Review 7. Cancer transcriptome profiling at the juncture of clinical translation.

Authors: Marcin Cieślik; Arul M Chinnaiyan
Journal: Nat Rev Genet Date: 2017-12-27 Impact factor: 53.242

8. Evolving insights into RNA modifications and their functional diversity in the brain.

Authors: Sarah Nainar; Paul R Marshall; Christina R Tyler; Robert C Spitale; Timothy W Bredy
Journal: Nat Neurosci Date: 2016-09-27 Impact factor: 24.884

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. 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