Literature DB >> 27840066

Small RNA Modifications: Integral to Function and Disease.

Xudong Zhang1, Aaron E Cozen2, Ying Liu1, Qi Chen3, Todd M Lowe4.   

Abstract

Small RNAs have the potential to store a secondary layer of labile biological information in the form of modified nucleotides. Emerging evidence has shown that small RNAs including microRNAs (miRNAs), PIWI-interacting RNAs (piRNAs) and tRNA-derived small RNAs (tsRNAs) harbor a diversity of RNA modifications. These findings highlight the importance of RNA modifications in the modulation of basic properties such as RNA stability and other complex physiological processes involved in stress responses, metabolism, immunity, and epigenetic inheritance of environmentally acquired traits, among others. High-resolution, high-throughput methods for detecting, mapping and screening these small RNA modifications now provide opportunities to uncover their diagnostic potential as sensitive disease markers. Copyright Â
© 2016 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  ARM-seq; DM-tRNA-seq; LC-MS/MS; RNA editing; RNA modification; tRNA-derived small RNAs

Mesh：

Substances：

Year:  2016        PMID： 27840066      PMCID： PMC5135593          DOI： 10.1016/j.molmed.2016.10.009

Source DB:  PubMed          Journal:  Trends Mol Med        ISSN： 1471-4914            Impact factor:   11.951


  75 in total

1.  Exogenous plant MIR168a specifically targets mammalian LDLRAP1: evidence of cross-kingdom regulation by microRNA.

Authors:  Lin Zhang; Dongxia Hou; Xi Chen; Donghai Li; Lingyun Zhu; Yujing Zhang; Jing Li; Zhen Bian; Xiangying Liang; Xing Cai; Yuan Yin; Cheng Wang; Tianfu Zhang; Dihan Zhu; Dianmu Zhang; Jie Xu; Qun Chen; Yi Ba; Jing Liu; Qiang Wang; Jianqun Chen; Jin Wang; Meng Wang; Qipeng Zhang; Junfeng Zhang; Ke Zen; Chen-Yu Zhang
Journal:  Cell Res       Date:  2011-09-20       Impact factor: 25.617

2.  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

3.  Conformational change in transfer RNA is an early indicator of acute cellular damage.

Authors:  Eikan Mishima; Chisako Inoue; Daisuke Saigusa; Ryusuke Inoue; Koki Ito; Yusuke Suzuki; Daisuke Jinno; Yuri Tsukui; Yosuke Akamatsu; Masatake Araki; Kimi Araki; Ritsuko Shimizu; Haruka Shinke; Takehiro Suzuki; Yoichi Takeuchi; Hisato Shima; Yasutoshi Akiyama; Takafumi Toyohara; Chitose Suzuki; Yoshikatu Saiki; Teiji Tominaga; Shigehito Miyagi; Naoki Kawagisihi; Tomoyoshi Soga; Takayoshi Ohkubo; Kenichi Yamamura; Yutaka Imai; Satohiro Masuda; Venkata Sabbisetti; Takaharu Ichimura; David B Mount; Joseph V Bonventre; Sadayoshi Ito; Yoshihisa Tomioka; Kunihiko Itoh; Takaaki Abe
Journal:  J Am Soc Nephrol       Date:  2014-05-15       Impact factor: 10.121

4.  The tRNA methyltransferase Dnmt2 is required for accurate polypeptide synthesis during haematopoiesis.

Authors:  Francesca Tuorto; Friederike Herbst; Nader Alerasool; Sebastian Bender; Oliver Popp; Giuseppina Federico; Sonja Reitter; Reinhard Liebers; Georg Stoecklin; Hermann-Josef Gröne; Gunnar Dittmar; Hanno Glimm; Frank Lyko
Journal:  EMBO J       Date:  2015-08-13       Impact factor: 11.598

5.  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

Review 6.  5-methylcytosine in RNA: detection, enzymatic formation and biological functions.

Authors:  Yuri Motorin; Frank Lyko; Mark Helm
Journal:  Nucleic Acids Res       Date:  2009-12-08       Impact factor: 16.971

7.  Methylation as a crucial step in plant microRNA biogenesis.

Authors:  Bin Yu; Zhiyong Yang; Junjie Li; Svetlana Minakhina; Maocheng Yang; Richard W Padgett; Ruth Steward; Xuemei Chen
Journal:  Science       Date:  2005-02-11       Impact factor: 47.728

8.  ARM-seq: AlkB-facilitated RNA methylation sequencing reveals a complex landscape of modified tRNA fragments.

Authors:  Aaron E Cozen; Erin Quartley; Andrew D Holmes; Eva Hrabeta-Robinson; Eric M Phizicky; Todd M Lowe
Journal:  Nat Methods       Date:  2015-08-03       Impact factor: 28.547

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
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  41 in total

1.  The expanding repertoire of hereditary information carriers.

Authors:  Ying Zhang; Qi Chen
Journal:  Development       Date:  2019-03-15       Impact factor: 6.868

Review 2.  Translational Control under Stress: Reshaping the Translatome.

Authors:  Vivek M Advani; Pavel Ivanov
Journal:  Bioessays       Date:  2019-05       Impact factor: 4.345

3.  tsRNAs: new players in mammalian retrotransposon control.

Authors:  Yunfang Zhang; Junchao Shi; Qi Chen
Journal:  Cell Res       Date:  2017-08-25       Impact factor: 25.617

Review 4.  The emerging complexity of the tRNA world: mammalian tRNAs beyond protein synthesis.

Authors:  Paul Schimmel
Journal:  Nat Rev Mol Cell Biol       Date:  2017-09-06       Impact factor: 94.444

5.  Stable tRNA halves can be sorted into extracellular vesicles and delivered to recipient cells in a concentration-dependent manner.

Authors:  Fabiana Gámbaro; Marco Li Calzi; Pablo Fagúndez; Bruno Costa; Gonzalo Greif; Emily Mallick; Shawn Lyons; Pavel Ivanov; Kenneth Witwer; Alfonso Cayota; Juan Pablo Tosar
Journal:  RNA Biol       Date:  2019-12-29       Impact factor: 4.652

Review 6.  Transgenerational epigenetic inheritance: from phenomena to molecular mechanisms.

Authors:  Noa Liberman; Simon Yuan Wang; Eric Lieberman Greer
Journal:  Curr Opin Neurobiol       Date:  2019-10-18       Impact factor: 6.627

7.  A hypertension-associated mitochondrial DNA mutation introduces an m1G37 modification into tRNAMet, altering its structure and function.

Authors:  Mi Zhou; Ling Xue; Yaru Chen; Haiying Li; Qiufen He; Bibin Wang; Feilong Meng; Meng Wang; Min-Xin Guan
Journal:  J Biol Chem       Date:  2017-12-08       Impact factor: 5.157

Review 8.  tRNA Metabolism and Neurodevelopmental Disorders.

Authors:  Ashleigh E Schaffer; Otis Pinkard; Jeffery M Coller
Journal:  Annu Rev Genomics Hum Genet       Date:  2019-05-13       Impact factor: 8.929

Review 9.  Targeting RNA in mammalian systems with small molecules.

Authors:  Anita Donlic; Amanda E Hargrove
Journal:  Wiley Interdiscip Rev RNA       Date:  2018-05-03       Impact factor: 9.957

10.  Small RNA modifications in Alzheimer's disease.

Authors:  Xudong Zhang; Fatima Trebak; Lucas A C Souza; Junchao Shi; Tong Zhou; Patrick G Kehoe; Qi Chen; Yumei Feng Earley
Journal:  Neurobiol Dis       Date:  2020-08-21       Impact factor: 5.996
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