Re-thinking miRNA-mRNA interactions: Intertwining issues confound target discovery

被引：90

作者：

Cloonan, Nicole ^{[1
]}

机构：

[1] QIMR Berghofer Med Res Inst, Genom Biol Lab, Herston, Qld, Australia

来源：

BIOESSAYS | 2015年 / 37卷 / 04期

基金：

澳大利亚研究理事会;

关键词：

biotin pull-down; centered sites; direct interactions; miRNA; mRNA destabilization; non-canonical sites; seed sites; translational inhibition; PROTEIN-DNA INTERACTIONS; C-FOS GENE; MICRORNA TARGETS; CODING REGIONS; BINDING-SITES; HUMAN-CELLS; TRANSLATION INITIATION; TRANSCRIPTION FACTORS; ARGONAUTE PROTEINS; LET-7; MICRORNA;

D O I：

10.1002/bies.201400191

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Despite a library full of literature on miRNA biology, core issues relating to miRNA target detection, biological effect, and mode of action remain controversial. This essay proposes that the predominant mechanism of direct miRNA action is translational inhibition, whereas the bulk of miRNA effects are mRNA based. It explores several issues confounding miRNA target detection, and discusses their impact on the dominance of miRNA seed dogma and the exploration of non-canonical binding sites. Finally, it makes comparisons between miRNA target prediction and transcription factor binding prediction, and questions the value of characterizing miRNA binding sites based on which miRNA nucleotides are paired with an mRNA.

引用

页码：379 / 388

页数：10

共 105 条

[1] Molecular basis for target RNA recognition and cleavage by human RISC [J].

Ameres, Stefan Ludwig ;

Martinez, Javier ;

Schroeder, Renee .

CELL, 2007, 130 (01) :101-112

[2] A role for eIF4E and eIF4E-transporter in targeting mRNPs to mammalian processing bodies [J].

Andrei, MA ;

Ingelfinger, D ;

Heintzmann, R ;

Achsel, T ;

Rivera-Pomar, R ;

Lührmann, R .

RNA, 2005, 11 (05) :717-727

[3]

Baccarini A, 2010, METHODS MOL BIOL, V667, P215, DOI 10.1007/978-1-60761-811-9_15

[4] The impact of microRNAs on protein output [J].

Baek, Daehyun ;

Villen, Judit ;

Shin, Chanseok ;

Camargo, Fernando D. ;

Gygi, Steven P. ;

Bartel, David P. .

NATURE, 2008, 455 (7209) :64-U38

[5] MicroRNAs: Target Recognition and Regulatory Functions [J].

Bartel, David P. .

CELL, 2009, 136 (02) :215-233

[6] microRNA-Mediated Messenger RNA Deadenylation Contributes to Translational Repression in Mammalian Cells [J].

Beilharz, Traude H. ;

Humphreys, David T. ;

Clancy, Jennifer L. ;

Thermann, Rolf ;

Martin, David I. K. ;

Hentze, Matthias W. ;

Preiss, Thomas .

PLOS ONE, 2009, 4 (08)

[7] Revisiting the principles of microRNA target recognition and mode of action [J].

Brodersen, Peter ;

Voinnet, Olivier .

NATURE REVIEWS MOLECULAR CELL BIOLOGY, 2009, 10 (02) :141-148

[8] IntaRNA: efficient prediction of bacterial sRNA targets incorporating target site accessibility and seed regions [J].

Busch, Anke ;

Richter, Andreas S. ;

Backofen, Rolf .

BIOINFORMATICS, 2008, 24 (24) :2849-2856

[9] An alternative mode of microRNA target recognition [J].

Chi, Sung Wook ;

Hannon, Gregory J. ;

Darnell, Robert B. .

NATURE STRUCTURAL & MOLECULAR BIOLOGY, 2012, 19 (03) :321-U80

[10] Argonaute HITS-CLIP decodes microRNA-mRNA interaction maps [J].

Chi, Sung Wook ;

Zang, Julie B. ;

Mele, Aldo ;

Darnell, Robert B. .

NATURE, 2009, 460 (7254) :479-486

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