Literature DB >> 27628706

The power of fission: yeast as a tool for understanding complex splicing.

Benjamin Jung Fair1, Jeffrey A Pleiss2.   

Abstract

Pre-mRNA splicing is an essential component of eukaryotic gene expression. Many metazoans, including humans, regulate alternative splicing patterns to generate expansions of their proteome from a limited number of genes. Importantly, a considerable fraction of human disease causing mutations manifest themselves through altering the sequences that shape the splicing patterns of genes. Thus, understanding the mechanistic bases of this complex pathway will be an essential component of combating these diseases. Dating almost to the initial discovery of splicing, researchers have taken advantage of the genetic tractability of budding yeast to identify the components and decipher the mechanisms of splicing. However, budding yeast lacks the complex splicing machinery and alternative splicing patterns most relevant to humans. More recently, many researchers have turned their efforts to study the fission yeast, Schizosaccharomyces pombe, which has retained many features of complex splicing, including degenerate splice site sequences, the usage of exonic splicing enhancers, and SR proteins. Here, we review recent work using fission yeast genetics to examine pre-mRNA splicing, highlighting its promise for modeling the complex splicing seen in higher eukaryotes.

Entities:  

Keywords:  Alternative splicing; Exon definition; Pre-mRNA splicing; SR proteins; Schizosaccharomyces pombe

Mesh:

Substances:

Year:  2016        PMID: 27628706      PMCID: PMC5350050          DOI: 10.1007/s00294-016-0647-6

Source DB:  PubMed          Journal:  Curr Genet        ISSN: 0172-8083            Impact factor:   3.886


  55 in total

1.  A novel peptide recognition mode revealed by the X-ray structure of a core U2AF35/U2AF65 heterodimer.

Authors:  C L Kielkopf; N A Rodionova; M R Green; S K Burley
Journal:  Cell       Date:  2001-09-07       Impact factor: 41.582

2.  Structure and function of the PWI motif: a novel nucleic acid-binding domain that facilitates pre-mRNA processing.

Authors:  Blair R Szymczyna; John Bowman; Susan McCracken; Antonio Pineda-Lucena; Ying Lu; Brian Cox; Mark Lambermon; Brenton R Graveley; Cheryl H Arrowsmith; Benjamin J Blencowe
Journal:  Genes Dev       Date:  2003-02-15       Impact factor: 11.361

Review 3.  Spliceosome structure and function.

Authors:  Cindy L Will; Reinhard Lührmann
Journal:  Cold Spring Harb Perspect Biol       Date:  2011-07-01       Impact factor: 10.005

4.  The SRm160/300 splicing coactivator subunits.

Authors:  B J Blencowe; G Baurén; A G Eldridge; R Issner; J A Nickerson; E Rosonina; P A Sharp
Journal:  RNA       Date:  2000-01       Impact factor: 4.942

5.  SR protein kinases promote splicing of nonconsensus introns.

Authors:  Jesse J Lipp; Michael C Marvin; Kevan M Shokat; Christine Guthrie
Journal:  Nat Struct Mol Biol       Date:  2015-07-13       Impact factor: 15.369

Review 6.  The quest for a message: budding yeast, a model organism to study the control of pre-mRNA splicing.

Authors:  Markus Meyer; Josep Vilardell
Journal:  Brief Funct Genomic Proteomic       Date:  2009-03-11

7.  Lariat sequencing in a unicellular yeast identifies regulated alternative splicing of exons that are evolutionarily conserved with humans.

Authors:  Ali R Awan; Amanda Manfredo; Jeffrey A Pleiss
Journal:  Proc Natl Acad Sci U S A       Date:  2013-07-16       Impact factor: 11.205

8.  Widespread exon skipping triggers degradation by nuclear RNA surveillance in fission yeast.

Authors:  Danny A Bitton; Sophie R Atkinson; Charalampos Rallis; Graeme C Smith; David A Ellis; Yuan Y C Chen; Michal Malecki; Sandra Codlin; Jean-François Lemay; Cristina Cotobal; François Bachand; Samuel Marguerat; Juan Mata; Jürg Bähler
Journal:  Genome Res       Date:  2015-04-16       Impact factor: 9.043

9.  Interconnections Between RNA-Processing Pathways Revealed by a Sequencing-Based Genetic Screen for Pre-mRNA Splicing Mutants in Fission Yeast.

Authors:  Amy Larson; Benjamin Jung Fair; Jeffrey A Pleiss
Journal:  G3 (Bethesda)       Date:  2016-06-01       Impact factor: 3.154

10.  A Proteome-wide Fission Yeast Interactome Reveals Network Evolution Principles from Yeasts to Human.

Authors:  Tommy V Vo; Jishnu Das; Michael J Meyer; Nicolas A Cordero; Nurten Akturk; Xiaomu Wei; Benjamin J Fair; Andrew G Degatano; Robert Fragoza; Lisa G Liu; Akihisa Matsuyama; Michelle Trickey; Sachi Horibata; Andrew Grimson; Hiroyuki Yamano; Minoru Yoshida; Frederick P Roth; Jeffrey A Pleiss; Yu Xia; Haiyuan Yu
Journal:  Cell       Date:  2016-01-14       Impact factor: 41.582

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  12 in total

Review 1.  Big data mining powers fungal research: recent advances in fission yeast systems biology approaches.

Authors:  Zhe Wang
Journal:  Curr Genet       Date:  2016-10-11       Impact factor: 3.886

Review 2.  Intron specificity in pre-mRNA splicing.

Authors:  Shravan Kumar Mishra; Poonam Thakran
Journal:  Curr Genet       Date:  2018-01-03       Impact factor: 3.886

3.  Phosphorylation by Prp4 kinase releases the self-inhibition of FgPrp31 in Fusarium graminearum.

Authors:  Xuli Gao; Ju Zhang; Chaoni Song; Kangyi Yuan; Jianhua Wang; Qiaojun Jin; Jin-Rong Xu
Journal:  Curr Genet       Date:  2018-04-18       Impact factor: 3.886

4.  Native RNA sequencing in fission yeast reveals frequent alternative splicing isoforms.

Authors:  José Carlos Montañés; Marta Huertas; Simone G Moro; William R Blevins; Mercè Carmona; José Ayté; Elena Hidalgo; M Mar Albà
Journal:  Genome Res       Date:  2022-05-26       Impact factor: 9.438

5.  Fission Yeast Schizosaccharomyces pombe: A Unicellular "Micromammal" Model Organism.

Authors:  Aditi Vyas; Anna V Freitas; Zachary A Ralston; Zhaohua Tang
Journal:  Curr Protoc       Date:  2021-06

6.  Functions for fission yeast splicing factors SpSlu7 and SpPrp18 in alternative splice-site choice and stress-specific regulated splicing.

Authors:  Geetha Melangath; Titash Sen; Rakesh Kumar; Pushpinder Bawa; Subha Srinivasan; Usha Vijayraghavan
Journal:  PLoS One       Date:  2017-12-13       Impact factor: 3.240

7.  A genetic screen implicates a CWC16/Yju2/CCDC130 protein and SMU1 in alternative splicing in Arabidopsis thaliana.

Authors:  Tatsuo Kanno; Wen-Dar Lin; Jason L Fu; Antonius J M Matzke; Marjori Matzke
Journal:  RNA       Date:  2017-04-03       Impact factor: 4.942

8.  Identification of proteins associated with splicing factors Ntr1, Ntr2, Brr2 and Gpl1 in the fission yeast Schizosaccharomyces pombe.

Authors:  Ingrid Cipakova; Matus Jurcik; Veronika Rubintova; Marianna Borbova; Barbora Mikolaskova; Jan Jurcik; Jana Bellova; Peter Barath; Juraj Gregan; Lubos Cipak
Journal:  Cell Cycle       Date:  2019-06-20       Impact factor: 4.534

9.  Long-read sequencing of nascent RNA reveals coupling among RNA processing events.

Authors:  Lydia Herzel; Korinna Straube; Karla M Neugebauer
Journal:  Genome Res       Date:  2018-06-14       Impact factor: 9.438

10.  PRP4KA, a Putative Spliceosomal Protein Kinase, Is Important for Alternative Splicing and Development in Arabidopsis thaliana.

Authors:  Tatsuo Kanno; Peter Venhuizen; Tuan-Nan Wen; Wen-Dar Lin; Phebe Chiou; Maria Kalyna; Antonius J M Matzke; Marjori Matzke
Journal:  Genetics       Date:  2018-10-08       Impact factor: 4.562

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