Literature DB >> 24514444

Coupling mRNA processing with transcription in time and space.

David L Bentley1.   

Abstract

Maturation of mRNA precursors often occurs simultaneously with their synthesis by RNA polymerase II (Pol II). The co-transcriptional nature of mRNA processing has permitted the evolution of coupling mechanisms that coordinate transcription with mRNA capping, splicing, editing and 3' end formation. Recent experiments using sophisticated new methods for analysis of nascent RNA have provided important insights into the relative amount of co-transcriptional and post-transcriptional processing, the relationship between mRNA elongation and processing, and the role of the Pol II carboxy-terminal domain (CTD) in regulating these processes.

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Year:  2014        PMID: 24514444      PMCID: PMC4304646          DOI: 10.1038/nrg3662

Source DB:  PubMed          Journal:  Nat Rev Genet        ISSN: 1471-0056            Impact factor:   53.242


  188 in total

1.  Nascent RNA structure modulates the transcriptional dynamics of RNA polymerases.

Authors:  Bradley Zamft; Lacramioara Bintu; Toyotaka Ishibashi; Carlos Bustamante
Journal:  Proc Natl Acad Sci U S A       Date:  2012-05-21       Impact factor: 11.205

2.  Physical isolation of nascent RNA chains transcribed by RNA polymerase II: evidence for cotranscriptional splicing.

Authors:  J Wuarin; U Schibler
Journal:  Mol Cell Biol       Date:  1994-11       Impact factor: 4.272

3.  A poly(A) addition site and a downstream termination region are required for efficient cessation of transcription by RNA polymerase II in the mouse beta maj-globin gene.

Authors:  J Logan; E Falck-Pedersen; J E Darnell; T Shenk
Journal:  Proc Natl Acad Sci U S A       Date:  1987-12       Impact factor: 11.205

4.  Cross-intron bridging interactions in the yeast commitment complex are conserved in mammals.

Authors:  N Abovich; M Rosbash
Journal:  Cell       Date:  1997-05-02       Impact factor: 41.582

5.  Nascent-seq indicates widespread cotranscriptional RNA editing in Drosophila.

Authors:  Joseph Rodriguez; Jerome S Menet; Michael Rosbash
Journal:  Mol Cell       Date:  2012-05-31       Impact factor: 17.970

6.  Splice-site mutations cause Rrp6-mediated nuclear retention of the unspliced RNAs and transcriptional down-regulation of the splicing-defective genes.

Authors:  Andrea B Eberle; Viktoria Hessle; Roger Helbig; Widad Dantoft; Niclas Gimber; Neus Visa
Journal:  PLoS One       Date:  2010-07-12       Impact factor: 3.240

Review 7.  Progression through the RNA polymerase II CTD cycle.

Authors:  Stephen Buratowski
Journal:  Mol Cell       Date:  2009-11-25       Impact factor: 17.970

8.  A unique structure at the carboxyl terminus of the largest subunit of eukaryotic RNA polymerase II.

Authors:  J L Corden; D L Cadena; J M Ahearn; M E Dahmus
Journal:  Proc Natl Acad Sci U S A       Date:  1985-12       Impact factor: 11.205

9.  Alpha-thalassaemia caused by a poly(A) site mutation reveals that transcriptional termination is linked to 3' end processing in the human alpha 2 globin gene.

Authors:  E Whitelaw; N Proudfoot
Journal:  EMBO J       Date:  1986-11       Impact factor: 11.598

10.  The Nrd1-Nab3-Sen1 termination complex interacts with the Ser5-phosphorylated RNA polymerase II C-terminal domain.

Authors:  Lidia Vasiljeva; Minkyu Kim; Hannes Mutschler; Stephen Buratowski; Anton Meinhart
Journal:  Nat Struct Mol Biol       Date:  2008-07-27       Impact factor: 15.369

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  315 in total

Review 1.  The RNA polymerase II CTD "orphan" residues: Emerging insights into the functions of Tyr-1, Thr-4, and Ser-7.

Authors:  Nathan M Yurko; James L Manley
Journal:  Transcription       Date:  2017-10-04

2.  Calcium-mediated histone modifications regulate alternative splicing in cardiomyocytes.

Authors:  Alok Sharma; Hieu Nguyen; Cuiyu Geng; Melissa N Hinman; Guangbin Luo; Hua Lou
Journal:  Proc Natl Acad Sci U S A       Date:  2014-11-03       Impact factor: 11.205

3.  Genome-wide modeling of transcription kinetics reveals patterns of RNA production delays.

Authors:  Antti Honkela; Jaakko Peltonen; Hande Topa; Iryna Charapitsa; Filomena Matarese; Korbinian Grote; Hendrik G Stunnenberg; George Reid; Neil D Lawrence; Magnus Rattray
Journal:  Proc Natl Acad Sci U S A       Date:  2015-10-05       Impact factor: 11.205

4.  Stochastic Kinetics of Nascent RNA.

Authors:  Heng Xu; Samuel O Skinner; Anna Marie Sokac; Ido Golding
Journal:  Phys Rev Lett       Date:  2016-09-13       Impact factor: 9.161

Review 5.  Co-Transcriptional RNA Processing in Plants: Exploring from the Perspective of Polyadenylation.

Authors:  Jing Yang; Ying Cao; Ligeng Ma
Journal:  Int J Mol Sci       Date:  2021-03-24       Impact factor: 5.923

6.  Mathematical modeling identifies potential gene structure determinants of co-transcriptional control of alternative pre-mRNA splicing.

Authors:  Jeremy Davis-Turak; Tracy L Johnson; Alexander Hoffmann
Journal:  Nucleic Acids Res       Date:  2018-11-16       Impact factor: 16.971

7.  Nuclear Proximity of Mtr4 to RNA Exosome Restricts DNA Mutational Asymmetry.

Authors:  Junghyun Lim; Pankaj Kumar Giri; David Kazadi; Brice Laffleur; Wanwei Zhang; Veronika Grinstein; Evangelos Pefanis; Lewis M Brown; Erik Ladewig; Ophélie Martin; Yuling Chen; Raul Rabadan; François Boyer; Gerson Rothschild; Michel Cogné; Eric Pinaud; Haiteng Deng; Uttiya Basu
Journal:  Cell       Date:  2017-04-20       Impact factor: 41.582

Review 8.  Faulty RNA splicing: consequences and therapeutic opportunities in brain and muscle disorders.

Authors:  Vittoria Pagliarini; Piergiorgio La Rosa; Claudio Sette
Journal:  Hum Genet       Date:  2017-04-22       Impact factor: 4.132

9.  Native elongating transcript sequencing reveals human transcriptional activity at nucleotide resolution.

Authors:  Andreas Mayer; Julia di Iulio; Seth Maleri; Umut Eser; Jeff Vierstra; Alex Reynolds; Richard Sandstrom; John A Stamatoyannopoulos; L Stirling Churchman
Journal:  Cell       Date:  2015-04-23       Impact factor: 41.582

Review 10.  Controlling translation via modulation of tRNA levels.

Authors:  Jeremy E Wilusz
Journal:  Wiley Interdiscip Rev RNA       Date:  2015-04-28       Impact factor: 9.957

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