Literature DB >> 22312453

Yeast nuclear RNA processing.

Jade Bernstein1, Eric A Toth.   

Abstract

Nuclear RNA processing requires dynamic and intricately regulated machinery composed of multiple enzymes and their cofactors. In this review, we summarize recent experiments using Saccharomyces cerevisiae as a model system that have yielded important insights regarding the conversion of pre-RNAs to functional RNAs, and the elimination of aberrant RNAs and unneeded intermediates from the nuclear RNA pool. Much progress has been made recently in describing the 3D structure of many elements of the nuclear degradation machinery and its cofactors. Similarly, the regulatory mechanisms that govern RNA processing are gradually coming into focus. Such advances invariably generate many new questions, which we highlight in this review.

Entities:  

Keywords:  Cryptic unstable transcript; Exosome; Mtr4p; Polyadenylation; Small nuclear RNA; Small nucleolar RNA; TRAMP; mRNA; rRNA; tRNA

Year:  2012        PMID: 22312453      PMCID: PMC3272586          DOI: 10.4331/wjbc.v3.i1.7

Source DB:  PubMed          Journal:  World J Biol Chem        ISSN: 1949-8454


  145 in total

1.  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

2.  The box H + ACA snoRNAs carry Cbf5p, the putative rRNA pseudouridine synthase.

Authors:  D L Lafontaine; C Bousquet-Antonelli; Y Henry; M Caizergues-Ferrer; D Tollervey
Journal:  Genes Dev       Date:  1998-02-15       Impact factor: 11.361

3.  The proofreading domain of Escherichia coli DNA polymerase I and other DNA and/or RNA exonuclease domains.

Authors:  M J Moser; W R Holley; A Chatterjee; I S Mian
Journal:  Nucleic Acids Res       Date:  1997-12-15       Impact factor: 16.971

4.  Structural and biochemical characterization of the yeast exosome component Rrp40.

Authors:  Anna Oddone; Esben Lorentzen; Jerome Basquin; Alexander Gasch; Vladimir Rybin; Elena Conti; Michael Sattler
Journal:  EMBO Rep       Date:  2006-12-08       Impact factor: 8.807

5.  Surveillance of nuclear-restricted pre-ribosomes within a subnucleolar region of Saccharomyces cerevisiae.

Authors:  Christophe Dez; Jonathan Houseley; David Tollervey
Journal:  EMBO J       Date:  2006-03-16       Impact factor: 11.598

6.  Degradation of several hypomodified mature tRNA species in Saccharomyces cerevisiae is mediated by Met22 and the 5'-3' exonucleases Rat1 and Xrn1.

Authors:  Irina Chernyakov; Joseph M Whipple; Lakmal Kotelawala; Elizabeth J Grayhack; Eric M Phizicky
Journal:  Genes Dev       Date:  2008-04-28       Impact factor: 11.361

7.  Nop53p interacts with 5.8S rRNA co-transcriptionally, and regulates processing of pre-rRNA by the exosome.

Authors:  Daniela C Granato; Glaucia M Machado-Santelli; Carla C Oliveira
Journal:  FEBS J       Date:  2008-07-09       Impact factor: 5.542

8.  The box H/ACA RNP assembly factor Naf1p contains a domain homologous to Gar1p mediating its interaction with Cbf5p.

Authors:  Nicolas Leulliot; Katherine S Godin; Coralie Hoareau-Aveilla; Sophie Quevillon-Cheruel; Gabriele Varani; Yves Henry; Herman Van Tilbeurgh
Journal:  J Mol Biol       Date:  2007-06-16       Impact factor: 5.469

9.  Deletion of the nuclear exosome component RRP6 leads to continued accumulation of the histone mRNA HTB1 in S-phase of the cell cycle in Saccharomyces cerevisiae.

Authors:  Ruth Canavan; Ursula Bond
Journal:  Nucleic Acids Res       Date:  2007-09-13       Impact factor: 16.971

10.  Rrp17p is a eukaryotic exonuclease required for 5' end processing of Pre-60S ribosomal RNA.

Authors:  Marlene Oeffinger; Daniel Zenklusen; Angelica Ferguson; Karen E Wei; Aziz El Hage; David Tollervey; Brian T Chait; Robert H Singer; Michael P Rout
Journal:  Mol Cell       Date:  2009-12-11       Impact factor: 17.970

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  6 in total

1.  The exosome-binding factors Rrp6 and Rrp47 form a composite surface for recruiting the Mtr4 helicase.

Authors:  Benjamin Schuch; Monika Feigenbutz; Debora L Makino; Sebastian Falk; Claire Basquin; Phil Mitchell; Elena Conti
Journal:  EMBO J       Date:  2014-10-15       Impact factor: 11.598

Review 2.  Ski2-like RNA helicase structures: common themes and complex assemblies.

Authors:  Sean J Johnson; Ryan N Jackson
Journal:  RNA Biol       Date:  2012-09-20       Impact factor: 4.652

3.  The Mtr4 ratchet helix and arch domain both function to promote RNA unwinding.

Authors:  Lacy L Taylor; Ryan N Jackson; Megi Rexhepaj; Alejandra Klauer King; Lindsey K Lott; Ambro van Hoof; Sean J Johnson
Journal:  Nucleic Acids Res       Date:  2014-11-20       Impact factor: 16.971

4.  The impact of genomic variation on protein phosphorylation states and regulatory networks.

Authors:  Jan Grossbach; Ludovic Gillet; Mathieu Clément-Ziza; Corinna L Schmalohr; Olga T Schubert; Maximilian Schütter; Julia S P Mawer; Christopher A Barnes; Isabell Bludau; Matthias Weith; Peter Tessarz; Martin Graef; Ruedi Aebersold; Andreas Beyer
Journal:  Mol Syst Biol       Date:  2022-05       Impact factor: 13.068

5.  RNA Polymerase II Transcription Attenuation at the Yeast DNA Repair Gene, DEF1, Involves Sen1-Dependent and Polyadenylation Site-Dependent Termination.

Authors:  Courtney Whalen; Christine Tuohy; Thomas Tallo; James W Kaufman; Claire Moore; Jason N Kuehner
Journal:  G3 (Bethesda)       Date:  2018-05-31       Impact factor: 3.154

6.  Rrp6 Moonlights in an RNA Exosome-Independent Manner to Promote Cell Survival and Gene Expression during Stress.

Authors:  Charles Wang; Yanru Liu; Samuel M DeMario; Igor Mandric; Carlos Gonzalez-Figueroa; Guillaume F Chanfreau
Journal:  Cell Rep       Date:  2020-06-09       Impact factor: 9.423

  6 in total

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