Elucidating the inosinome: global approaches to adenosine-to-inosine RNA editing

被引:76
作者
Wulff, Bjorn-Erik [1 ]
Sakurai, Masayuki [1 ]
Nishikura, Kazuko [1 ]
机构
[1] Wistar Inst Anat & Biol, Philadelphia, PA 19104 USA
基金
美国国家卫生研究院; 日本学术振兴会;
关键词
HUMAN TRANSCRIPTOME; ADAR DEAMINASES; MESSENGER-RNA; SITES; BRAIN; IDENTIFICATION; EXPRESSION; TARGETS; BIOGENESIS; MICRORNAS;
D O I
10.1038/nrg2915
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
Catalysed by members of the adenosine deaminase acting on RNA (ADAR) family of enzymes, adenosine-to-inosine (A-to-I) editing converts adenosines in RNA molecules to inosines, which are functionally equivalent to guanosines. Recently, global approaches to studying this widely conserved phenomenon have emerged. The use of bioinformatics, high-throughput sequencing and other approaches has increased the number of known editing sites by several orders of magnitude, and we now have a greater understanding of the control and the biological significance of editing. This Progress article reviews some of these recent global studies and their results.
引用
收藏
页码:81 / 85
页数:5
相关论文
共 38 条
[1]   Widespread A-to-I RNA editing of alu-containing mRNAs in the human transcriptome [J].
Athanasiadis, A ;
Rich, A ;
Maas, S .
PLOS BIOLOGY, 2004, 2 (12) :2144-2158
[2]   Evidence for large diversity in the human transcriptome created by Alu RNA editing [J].
Barak, Michal ;
Levanon, Erez Y. ;
Eisenberg, Eli ;
Paz, Nurit ;
Rechavi, Gideon ;
Church, George M. ;
Mehr, Ramit .
NUCLEIC ACIDS RESEARCH, 2009, 37 (20) :6905-6915
[3]   MicroRNAs: Genomics, biogenesis, mechanism, and function (Reprinted from Cell, vol 116, pg 281-297, 2004) [J].
Bartel, David P. .
CELL, 2007, 131 (04) :11-29
[4]   RNA editing by adenosine deaminases that act on RNA [J].
Bass, BL .
ANNUAL REVIEW OF BIOCHEMISTRY, 2002, 71 :817-846
[5]   RNA editing of human microRNAs [J].
Blow, Matthew J. ;
Grocock, Russell J. ;
van Dongen, Stijn ;
Enright, Anton J. ;
Dicks, Ed ;
Futreal, P. Andrew ;
Wooster, Richard ;
Stratton, Michael R. .
GENOME BIOLOGY, 2006, 7 (04)
[6]   Adenosine deamination in human transcripts generates novel microRNA binding sites [J].
Borchert, Glen M. ;
Gilmore, Brian L. ;
Spengler, Ryan M. ;
Xing, Yi ;
Lanier, William ;
Bhattacharya, Debashish ;
Davidson, Beverly L. .
HUMAN MOLECULAR GENETICS, 2009, 18 (24) :4801-4807
[7]   Mammalian microRNAs: experimental evaluation of novel and previously annotated genes [J].
Chiang, H. Rosaria ;
Schoenfeld, Lori W. ;
Ruby, J. Graham ;
Auyeung, Vincent C. ;
Spies, Noah ;
Baek, Daehyun ;
Johnston, Wendy K. ;
Russ, Carsten ;
Luo, Shujun ;
Babiarz, Joshua E. ;
Blelloch, Robert ;
Schroth, Gary P. ;
Nusbaum, Chad ;
Bartel, David P. .
GENES & DEVELOPMENT, 2010, 24 (10) :992-1009
[8]   Cross-mapping and the identification of editing sites in mature microRNAs in high-throughput sequencing libraries [J].
de Hoon, Michiel J. L. ;
Taft, Ryan J. ;
Hashimoto, Takehiro ;
Kanamori-Katayama, Mutsumi ;
Kawaji, Hideya ;
Kawano, Mitsuoki ;
Kishima, Mami ;
Lassmann, Timo ;
Faulkner, Geoffrey J. ;
Mattick, John S. ;
Daub, Carsten O. ;
Carninci, Piero ;
Kawai, Jun ;
Suzuki, Harukazu ;
Hayashizaki, Yoshihide .
GENOME RESEARCH, 2010, 20 (02) :257-264
[9]   A computational screen for site selective A-to-I editing detects novel sites in neuron specific Hu proteins [J].
Enstero, Mats ;
Akerborg, Orjan ;
Lundin, Daniel ;
Wang, Bei ;
Furey, Terrence S. ;
Ohman, Marie ;
Lagergren, Jens .
BMC BIOINFORMATICS, 2010, 11
[10]   Recognition and coupling of A-to-I edited sites are determined by the tertiary structure of the RNA [J].
Enstero, Mats ;
Daniel, Chammiran ;
Wahlstedt, Helene ;
Major, Francois ;
Ohman, Marie .
NUCLEIC ACIDS RESEARCH, 2009, 37 (20) :6916-6926