Literature DB >> 25491922

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

Kai Chen1, Zhike Lu, Xiao Wang, Ye Fu, Guan-Zheng Luo, Nian Liu, Dali Han, Dan Dominissini, Qing Dai, Tao Pan, Chuan He.   

Abstract

N(6) -methyladenosine (m(6) A) is an abundant internal modification in eukaryotic mRNA and plays regulatory roles in mRNA metabolism. However, methods to precisely locate the m(6) A modification remain limited. We present here a photo-crosslinking-assisted m(6) A sequencing strategy (PA-m(6) A-seq) to more accurately define sites with m(6) A modification. Using this strategy, we obtained a high-resolution map of m(6) A in a human transcriptome. The map resembles the general distribution pattern observed previously, and reveals new m(6) A sites at base resolution. Our results provide insight into the relationship between the methylation regions and the binding sites of RNA-binding proteins.
© 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Entities:  

Keywords:  N6-methyladenosine; RNA modification; photo-crosslinking; transcriptome sequencing

Mesh:

Substances:

Year:  2014        PMID: 25491922      PMCID: PMC4396828          DOI: 10.1002/anie.201410647

Source DB:  PubMed          Journal:  Angew Chem Int Ed Engl        ISSN: 1433-7851            Impact factor:   15.336


  41 in total

1.  Sequence specificity of the human mRNA N6-adenosine methylase in vitro.

Authors:  J E Harper; S M Miceli; R J Roberts; J L Manley
Journal:  Nucleic Acids Res       Date:  1990-10-11       Impact factor: 16.971

2.  Use of DNAzymes for site-specific analysis of ribonucleotide modifications.

Authors:  Martin Hengesbach; Madeleine Meusburger; Frank Lyko; Mark Helm
Journal:  RNA       Date:  2007-11-12       Impact factor: 4.942

3.  Antibodies specific for N6-methyladenosine react with intact snRNPs U2 and U4/U6.

Authors:  P Bringmann; R Lührmann
Journal:  FEBS Lett       Date:  1987-03-23       Impact factor: 4.124

4.  Purification and cDNA cloning of the AdoMet-binding subunit of the human mRNA (N6-adenosine)-methyltransferase.

Authors:  J A Bokar; M E Shambaugh; D Polayes; A G Matera; F M Rottman
Journal:  RNA       Date:  1997-11       Impact factor: 4.942

5.  Precise localization of m6A in Rous sarcoma virus RNA reveals clustering of methylation sites: implications for RNA processing.

Authors:  S E Kane; K Beemon
Journal:  Mol Cell Biol       Date:  1985-09       Impact factor: 4.272

6.  Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities.

Authors:  Sven Heinz; Christopher Benner; Nathanael Spann; Eric Bertolino; Yin C Lin; Peter Laslo; Jason X Cheng; Cornelis Murre; Harinder Singh; Christopher K Glass
Journal:  Mol Cell       Date:  2010-05-28       Impact factor: 17.970

7.  Ultrafast and memory-efficient alignment of short DNA sequences to the human genome.

Authors:  Ben Langmead; Cole Trapnell; Mihai Pop; Steven L Salzberg
Journal:  Genome Biol       Date:  2009-03-04       Impact factor: 13.583

8.  Characterization and partial purification of mRNA N6-adenosine methyltransferase from HeLa cell nuclei. Internal mRNA methylation requires a multisubunit complex.

Authors:  J A Bokar; M E Rath-Shambaugh; R Ludwiczak; P Narayan; F Rottman
Journal:  J Biol Chem       Date:  1994-07-01       Impact factor: 5.157

9.  Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP.

Authors:  Markus Hafner; Markus Landthaler; Lukas Burger; Mohsen Khorshid; Jean Hausser; Philipp Berninger; Andrea Rothballer; Manuel Ascano; Anna-Carina Jungkamp; Mathias Munschauer; Alexander Ulrich; Greg S Wardle; Scott Dewell; Mihaela Zavolan; Thomas Tuschl
Journal:  Cell       Date:  2010-04-02       Impact factor: 41.582

10.  Identification of recognition residues for ligation-based detection and quantitation of pseudouridine and N6-methyladenosine.

Authors:  Qing Dai; Robert Fong; Mridusmita Saikia; David Stephenson; Yi-tao Yu; Tao Pan; Joseph A Piccirilli
Journal:  Nucleic Acids Res       Date:  2007-09-18       Impact factor: 16.971

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  134 in total

Review 1.  RNA epigenetics--chemical messages for posttranscriptional gene regulation.

Authors:  Ian A Roundtree; Chuan He
Journal:  Curr Opin Chem Biol       Date:  2015-11-26       Impact factor: 8.822

2.  N6-methyldeoxyadenosine marks active transcription start sites in Chlamydomonas.

Authors:  Ye Fu; Guan-Zheng Luo; Kai Chen; Xin Deng; Miao Yu; Dali Han; Ziyang Hao; Jianzhao Liu; Xingyu Lu; Louis C Dore; Xiaocheng Weng; Quanjiang Ji; Laurens Mets; Chuan He
Journal:  Cell       Date:  2015-04-30       Impact factor: 41.582

3.  Long noncoding RNA pncRNA-D reduces cyclin D1 gene expression and arrests cell cycle through RNA m6A modification.

Authors:  Ryoma Yoneda; Naomi Ueda; Kousuke Uranishi; Masataka Hirasaki; Riki Kurokawa
Journal:  J Biol Chem       Date:  2020-03-12       Impact factor: 5.157

Review 4.  Small changes, big implications: The impact of m6A RNA methylation on gene expression in pluripotency and development.

Authors:  Adam M Heck; Carol J Wilusz
Journal:  Biochim Biophys Acta Gene Regul Mech       Date:  2019-07-17       Impact factor: 4.490

Review 5.  N6-methyladenosine modifications: interactions with novel RNA-binding proteins and roles in signal transduction.

Authors:  Jiaxin Chen; Xiao Fang; Pengcheng Zhong; Zhangfa Song; Xiaotong Hu
Journal:  RNA Biol       Date:  2019-05-26       Impact factor: 4.652

Review 6.  Chemical and structural effects of base modifications in messenger RNA.

Authors:  Emily M Harcourt; Anna M Kietrys; Eric T Kool
Journal:  Nature       Date:  2017-01-18       Impact factor: 49.962

Review 7.  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 8.  Viral Epitranscriptomics.

Authors:  Edward M Kennedy; David G Courtney; Kevin Tsai; Bryan R Cullen
Journal:  J Virol       Date:  2017-04-13       Impact factor: 5.103

9.  m6A modulates haematopoietic stem and progenitor cell specification.

Authors:  Chunxia Zhang; Yusheng Chen; Baofa Sun; Lu Wang; Ying Yang; Dongyuan Ma; Junhua Lv; Jian Heng; Yanyan Ding; Yuanyuan Xue; Xinyan Lu; Wen Xiao; Yun-Gui Yang; Feng Liu
Journal:  Nature       Date:  2017-09-06       Impact factor: 49.962

10.  Genome-Wide Maps of m6A circRNAs Identify Widespread and Cell-Type-Specific Methylation Patterns that Are Distinct from mRNAs.

Authors:  Chan Zhou; Benoit Molinie; Kaveh Daneshvar; Joshua V Pondick; Jinkai Wang; Nicholas Van Wittenberghe; Yi Xing; Cosmas C Giallourakis; Alan C Mullen
Journal:  Cell Rep       Date:  2017-08-29       Impact factor: 9.423

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