Literature DB >> 30037969

Ribosome Profiling: Global Views of Translation.

Nicholas T Ingolia1, Jeffrey A Hussmann2,3, Jonathan S Weissman2,3.   

Abstract

The translation of messenger RNA (mRNA) into protein and the folding of the resulting protein into an active form are prerequisites for virtually every cellular process and represent the single largest investment of energy by cells. Ribosome profiling-based approaches have revolutionized our ability to monitor every step of protein synthesis in vivo, allowing one to measure the rate of protein synthesis across the proteome, annotate the protein coding capacity of genomes, monitor localized protein synthesis, and explore cotranslational folding and targeting. The rich and quantitative nature of ribosome profiling data provides an unprecedented opportunity to explore and model complex cellular processes. New analytical techniques and improved experimental protocols will provide a deeper understanding of the factors controlling translation speed and its impact on protein function and cell physiology as well as the role of ribosomal RNA and mRNA modifications in regulating translation.
Copyright © 2019 Cold Spring Harbor Laboratory Press; all rights reserved.

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Year:  2019        PMID: 30037969      PMCID: PMC6496350          DOI: 10.1101/cshperspect.a032698

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


  185 in total

Review 1.  mRNA transport & local translation in neurons.

Authors:  Caspar Glock; Maximilian Heumüller; Erin M Schuman
Journal:  Curr Opin Neurobiol       Date:  2017-06-17       Impact factor: 6.627

2.  Nucleotide sequences of the ribosomal binding sites of bacteriophage R17 RNA.

Authors:  J A Steitz
Journal:  Cold Spring Harb Symp Quant Biol       Date:  1969

Review 3.  Therapeutic Opportunities in Eukaryotic Translation.

Authors:  Jennifer Chu; Jerry Pelletier
Journal:  Cold Spring Harb Perspect Biol       Date:  2018-06-01       Impact factor: 10.005

4.  The DEAD-Box Protein Dhh1p Couples mRNA Decay and Translation by Monitoring Codon Optimality.

Authors:  Aditya Radhakrishnan; Ying-Hsin Chen; Sophie Martin; Najwa Alhusaini; Rachel Green; Jeff Coller
Journal:  Cell       Date:  2016-09-15       Impact factor: 41.582

Review 5.  Ribosomopathies: There's strength in numbers.

Authors:  Eric W Mills; Rachel Green
Journal:  Science       Date:  2017-11-03       Impact factor: 47.728

6.  A bicistronic MAVS transcript highlights a class of truncated variants in antiviral immunity.

Authors:  Sky W Brubaker; Anna E Gauthier; Eric W Mills; Nicholas T Ingolia; Jonathan C Kagan
Journal:  Cell       Date:  2014-02-13       Impact factor: 41.582

7.  Genomic variation. Impact of regulatory variation from RNA to protein.

Authors:  Alexis Battle; Zia Khan; Sidney H Wang; Amy Mitrano; Michael J Ford; Jonathan K Pritchard; Yoav Gilad
Journal:  Science       Date:  2014-12-18       Impact factor: 47.728

8.  Targeting and plasticity of mitochondrial proteins revealed by proximity-specific ribosome profiling.

Authors:  Christopher C Williams; Calvin H Jan; Jonathan S Weissman
Journal:  Science       Date:  2014-11-07       Impact factor: 47.728

9.  A unifying model for mTORC1-mediated regulation of mRNA translation.

Authors:  Carson C Thoreen; Lynne Chantranupong; Heather R Keys; Tim Wang; Nathanael S Gray; David M Sabatini
Journal:  Nature       Date:  2012-05-02       Impact factor: 49.962

10.  Extensive and coordinated control of allele-specific expression by both transcription and translation in Candida albicans.

Authors:  Dale Muzzey; Gavin Sherlock; Jonathan S Weissman
Journal:  Genome Res       Date:  2014-04-14       Impact factor: 9.043

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  60 in total

Review 1.  Toward a Kinetic Understanding of Eukaryotic Translation.

Authors:  Masaaki Sokabe; Christopher S Fraser
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-02-01       Impact factor: 10.005

2.  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

Review 3.  Phosphorylation and Signal Transduction Pathways in Translational Control.

Authors:  Christopher G Proud
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-07-01       Impact factor: 10.005

Review 4.  The Epitranscriptome in Translation Regulation.

Authors:  Eyal Peer; Sharon Moshitch-Moshkovitz; Gideon Rechavi; Dan Dominissini
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-08-01       Impact factor: 10.005

Review 5.  Translational Control during Developmental Transitions.

Authors:  Felipe Karam Teixeira; Ruth Lehmann
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-06-03       Impact factor: 10.005

Review 6.  Roles of Long Noncoding RNAs and Circular RNAs in Translation.

Authors:  Marina Chekulaeva; Nikolaus Rajewsky
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-06-03       Impact factor: 10.005

Review 7.  Lighting up single-mRNA translation dynamics in living cells.

Authors:  Charlotte A Cialek; Amanda L Koch; Gabriel Galindo; Timothy J Stasevich
Journal:  Curr Opin Genet Dev       Date:  2020-05-11       Impact factor: 5.578

8.  Nascent Polypeptide Domain Topology and Elongation Rate Direct the Cotranslational Hierarchy of Hsp70 and TRiC/CCT.

Authors:  Kevin C Stein; Allison Kriel; Judith Frydman
Journal:  Mol Cell       Date:  2019-08-07       Impact factor: 17.970

9.  RiboDiPA: a novel tool for differential pattern analysis in Ribo-seq data.

Authors:  Keren Li; C Matthew Hope; Xiaozhong A Wang; Ji-Ping Wang
Journal:  Nucleic Acids Res       Date:  2020-12-02       Impact factor: 16.971

10.  Quantifying the dynamics of IRES and cap translation with single-molecule resolution in live cells.

Authors:  Amanda Koch; Luis Aguilera; Tatsuya Morisaki; Brian Munsky; Timothy J Stasevich
Journal:  Nat Struct Mol Biol       Date:  2020-09-21       Impact factor: 15.369

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