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Literature DB >> 22751153

From cis-regulatory elements to complex RNPs and back.

Fátima Gebauer¹, Thomas Preiss, Matthias W Hentze.

Abstract

Messenger RNAs (mRNAs), the templates for translation, have evolved to harbor abundant cis-acting sequences that affect their posttranscriptional fates. These elements are frequently located in the untranslated regions and serve as binding sites for trans-acting factors, RNA-binding proteins, and/or small non-coding RNAs. This article provides a systematic synopsis of cis-acting elements, trans-acting factors, and the mechanisms by which they affect translation. It also highlights recent technical advances that have ushered in the era of transcriptome-wide studies of the ribonucleoprotein complexes formed by mRNAs and their trans-acting factors.

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Year: 2012 PMID： 22751153 PMCID： PMC3385959 DOI： 10.1101/cshperspect.a012245

Source DB: PubMed Journal: Cold Spring Harb Perspect Biol ISSN： 1943-0264 Impact factor: 10.005

100 in total

1. Smaug assembles an ATP-dependent stable complex repressing nanos mRNA translation at multiple levels.

Authors: Mandy Jeske; Bodo Moritz; Alexander Anders; Elmar Wahle
Journal: EMBO J Date: 2010-11-16 Impact factor: 11.598

2. The prospects for designer single-stranded RNA-binding proteins.

Authors: Joel P Mackay; Josep Font; David J Segal
Journal: Nat Struct Mol Biol Date: 2011-02-27 Impact factor: 15.369

3. Quantitative profiling of in vivo-assembled RNA-protein complexes using a novel integrated proteomic approach.

Authors: Becky Pinjou Tsai; Xiaorong Wang; Lan Huang; Marian L Waterman
Journal: Mol Cell Proteomics Date: 2011-02-01 Impact factor: 5.911

4. Global quantification of mammalian gene expression control.

Authors: Björn Schwanhäusser; Dorothea Busse; Na Li; Gunnar Dittmar; Johannes Schuchhardt; Jana Wolf; Wei Chen; Matthias Selbach
Journal: Nature Date: 2011-05-19 Impact factor: 49.962

5. Phosphorylation of glutamyl-prolyl tRNA synthetase by cyclin-dependent kinase 5 dictates transcript-selective translational control.

Authors: Abul Arif; Jie Jia; Robyn A Moodt; Paul E DiCorleto; Paul L Fox
Journal: Proc Natl Acad Sci U S A Date: 2011-01-10 Impact factor: 11.205

6. Multiple mechanisms collaborate to repress nanos translation in the Drosophila ovary and embryo.

Authors: Shane Andrews; Danielle R Snowflack; Ira E Clark; Elizabeth R Gavis
Journal: RNA Date: 2011-04-01 Impact factor: 4.942

7. Maternal mRNA deadenylation and decay by the piRNA pathway in the early Drosophila embryo.

Authors: Christel Rouget; Catherine Papin; Anthony Boureux; Anne-Cécile Meunier; Bénédicte Franco; Nicolas Robine; Eric C Lai; Alain Pelisson; Martine Simonelig
Journal: Nature Date: 2010-10-17 Impact factor: 49.962

8. Proteome-wide search reveals unexpected RNA-binding proteins in Saccharomyces cerevisiae.

Authors: Nikoleta G Tsvetanova; Daniel M Klass; Julia Salzman; Patrick O Brown
Journal: PLoS One Date: 2010-09-10 Impact factor: 3.240

9. Structure-based prediction of RNA-binding domains and RNA-binding sites and application to structural genomics targets.

Authors: Huiying Zhao; Yuedong Yang; Yaoqi Zhou
Journal: Nucleic Acids Res Date: 2010-12-22 Impact factor: 16.971

10. A screen for RNA-binding proteins in yeast indicates dual functions for many enzymes.

Authors: Tanja Scherrer; Nitish Mittal; Sarath Chandra Janga; André P Gerber
Journal: PLoS One Date: 2010-11-11 Impact factor: 3.240

37 in total

1. Translational offsetting as a mode of estrogen receptor α-dependent regulation of gene expression.

Authors: Julie Lorent; Eric P Kusnadi; Vincent van Hoef; Richard J Rebello; Matthew Leibovitch; Johannes Ristau; Shan Chen; Mitchell G Lawrence; Krzysztof J Szkop; Baila Samreen; Preetika Balanathan; Francesca Rapino; Pierre Close; Patricia Bukczynska; Karin Scharmann; Itsuhiro Takizawa; Gail P Risbridger; Luke A Selth; Sebastian A Leidel; Qishan Lin; Ivan Topisirovic; Ola Larsson; Luc Furic
Journal: EMBO J Date: 2019-09-26 Impact factor: 11.598

2. Evidence That Base-pairing Interaction between Intron and mRNA Leader Sequences Inhibits Initiation of HAC1 mRNA Translation in Yeast.

Authors: Leena Sathe; Cheryl Bolinger; M Amin-ul Mannan; Thomas E Dever; Madhusudan Dey
Journal: J Biol Chem Date: 2015-07-14 Impact factor: 5.157

Review 3. Stress granules, P-bodies and cancer.

Authors: Paul Anderson; Nancy Kedersha; Pavel Ivanov
Journal: Biochim Biophys Acta Date: 2014-12-05

Review 4. Principles of translational control: an overview.

Authors: John W B Hershey; Nahum Sonenberg; Michael B Mathews
Journal: Cold Spring Harb Perspect Biol Date: 2012-12-01 Impact factor: 10.005

5. RNA-ID, a highly sensitive and robust method to identify cis-regulatory sequences using superfolder GFP and a fluorescence-based assay.

Authors: Kimberly M Dean; Elizabeth J Grayhack
Journal: RNA Date: 2012-10-24 Impact factor: 4.942

6. ALKBH1-Mediated tRNA Demethylation Regulates Translation.

Authors: Fange Liu; Wesley Clark; Guanzheng Luo; Xiaoyun Wang; Ye Fu; Jiangbo Wei; Xiao Wang; Ziyang Hao; Qing Dai; Guanqun Zheng; Honghui Ma; Dali Han; Molly Evans; Arne Klungland; Tao Pan; Chuan He
Journal: Cell Date: 2016-10-13 Impact factor: 41.582