Literature DB >> 26522170

Trypanosome RNA editing: the complexity of getting U in and taking U out.

Laurie K Read1, Julius Lukeš2,3,4, Hassan Hashimi2,3.   

Abstract

RNA editing, which adds sequence information to RNAs post-transcriptionally, is a widespread phenomenon throughout eukaryotes. The most complex form of this process is the uridine (U) insertion/deletion editing that occurs in the mitochondria of kinetoplastid protists. RNA editing in these flagellates is specified by trans-acting guide RNAs and entails the insertion of hundreds and deletion of dozens of U residues from mitochondrial RNAs to produce mature, translatable mRNAs. An emerging model indicates that the machinery required for trypanosome RNA editing is much more complicated than previously appreciated. A family of RNA editing core complexes (RECCs), which contain the required enzymes and several structural proteins, catalyze cycles of U insertion and deletion. A second, dynamic multiprotein complex, the Mitochondrial RNA Binding 1 (MRB1) complex, has recently come to light as another essential component of the trypanosome RNA editing machinery. MRB1 likely serves as the platform for kinetoplastid RNA editing, and plays critical roles in RNA utilization and editing processivity. MRB1 also appears to act as a hub for coordination of RNA editing with additional mitochondrial RNA processing events. This review highlights the current knowledge regarding the complex molecular machinery involved in trypanosome RNA editing. WIREs RNA 2016, 7:33-51. doi: 10.1002/wrna.1313 For further resources related to this article, please visit the WIREs website.
© 2015 Wiley Periodicals, Inc.

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Year:  2015        PMID: 26522170      PMCID: PMC4835692          DOI: 10.1002/wrna.1313

Source DB:  PubMed          Journal:  Wiley Interdiscip Rev RNA        ISSN: 1757-7004            Impact factor:   9.957


  84 in total

1.  KREPB6, KREPB7, and KREPB8 are important for editing endonuclease function in Trypanosoma brucei.

Authors:  Xuemin Guo; Jason Carnes; Nancy Lewis Ernst; Matt Winkler; Kenneth Stuart
Journal:  RNA       Date:  2011-12-19       Impact factor: 4.942

2.  Opposing effects of polyadenylation on the stability of edited and unedited mitochondrial RNAs in Trypanosoma brucei.

Authors:  Chia-Ying Kao; Laurie K Read
Journal:  Mol Cell Biol       Date:  2005-03       Impact factor: 4.272

3.  Guide RNA biogenesis involves a novel RNase III family endoribonuclease in Trypanosoma brucei.

Authors:  Bhaskara Reddy Madina; Gokulan Kuppan; Ajay A Vashisht; Yu-He Liang; Kurtis M Downey; James A Wohlschlegel; Xinhua Ji; Sing-Hoi Sze; James C Sacchettini; Laurie K Read; Jorge Cruz-Reyes
Journal:  RNA       Date:  2011-08-02       Impact factor: 4.942

4.  Genomic characterization of Neoparamoeba pemaquidensis (Amoebozoa) and its kinetoplastid endosymbiont.

Authors:  Goro Tanifuji; Eunsoo Kim; Naoko T Onodera; Rebecca Gibeault; Marlena Dlutek; Richard J Cawthorn; Ivan Fiala; Julius Lukes; Spencer J Greenwood; John M Archibald
Journal:  Eukaryot Cell       Date:  2011-06-10

5.  Endonuclease associations with three distinct editosomes in Trypanosoma brucei.

Authors:  Jason Carnes; Carmen Zelaya Soares; Carey Wickham; Kenneth Stuart
Journal:  J Biol Chem       Date:  2011-04-07       Impact factor: 5.157

6.  MRB3010 is a core component of the MRB1 complex that facilitates an early step of the kinetoplastid RNA editing process.

Authors:  Michelle L Ammerman; Hassan Hashimi; Lucie Novotná; Zdenka Cicová; Sarah M McEvoy; Julius Lukes; Laurie K Read
Journal:  RNA       Date:  2011-03-30       Impact factor: 4.942

7.  Pentatricopeptide repeat proteins stimulate mRNA adenylation/uridylation to activate mitochondrial translation in trypanosomes.

Authors:  Inna Aphasizheva; Dmitri Maslov; Xiaorong Wang; Lan Huang; Ruslan Aphasizhev
Journal:  Mol Cell       Date:  2011-04-08       Impact factor: 17.970

8.  Comparative genomics reveals two novel RNAi factors in Trypanosoma brucei and provides insight into the core machinery.

Authors:  Rebecca L Barnes; Huafang Shi; Nikolay G Kolev; Christian Tschudi; Elisabetta Ullu
Journal:  PLoS Pathog       Date:  2012-05-24       Impact factor: 6.823

9.  Additive and transcript-specific effects of KPAP1 and TbRND activities on 3' non-encoded tail characteristics and mRNA stability in Trypanosoma brucei.

Authors:  Sara L Zimmer; Sarah M McEvoy; Sarita Menon; Laurie K Read
Journal:  PLoS One       Date:  2012-05-21       Impact factor: 3.240

10.  KREX2 is not essential for either procyclic or bloodstream form Trypanosoma brucei.

Authors:  Jason Carnes; Nancy Lewis Ernst; Carey Wickham; Brian Panicucci; Kenneth Stuart
Journal:  PLoS One       Date:  2012-03-15       Impact factor: 3.240

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  66 in total

1.  REH2C Helicase and GRBC Subcomplexes May Base Pair through mRNA and Small Guide RNA in Kinetoplastid Editosomes.

Authors:  Vikas Kumar; Bhaskara R Madina; Shelly Gulati; Ajay A Vashisht; Chiedza Kanyumbu; Brittany Pieters; Afzal Shakir; James A Wohlschlegel; Laurie K Read; Blaine H M Mooers; Jorge Cruz-Reyes
Journal:  J Biol Chem       Date:  2016-01-14       Impact factor: 5.157

Review 2.  High throughput sequencing revolution reveals conserved fundamentals of U-indel editing.

Authors:  Sara L Zimmer; Rachel M Simpson; Laurie K Read
Journal:  Wiley Interdiscip Rev RNA       Date:  2018-06-11       Impact factor: 9.957

Review 3.  Constructive edge of uridylation-induced RNA degradation.

Authors:  Ruslan Aphasizhev; Takuma Suematsu; Liye Zhang; Inna Aphasizheva
Journal:  RNA Biol       Date:  2016-10-07       Impact factor: 4.652

4.  PPR polyadenylation factor defines mitochondrial mRNA identity and stability in trypanosomes.

Authors:  Liye Zhang; Francois M Sement; Takuma Suematsu; Tian Yu; Stefano Monti; Lan Huang; Ruslan Aphasizhev; Inna Aphasizheva
Journal:  EMBO J       Date:  2017-07-06       Impact factor: 11.598

5.  Transcription initiation defines kinetoplast RNA boundaries.

Authors:  François M Sement; Takuma Suematsu; Liye Zhang; Tian Yu; Lan Huang; Inna Aphasizheva; Ruslan Aphasizhev
Journal:  Proc Natl Acad Sci U S A       Date:  2018-10-17       Impact factor: 11.205

Review 6.  Post-transcriptional mending of gene sequences: Looking under the hood of mitochondrial gene expression in diplonemids.

Authors:  Matus Valach; Sandrine Moreira; Drahomíra Faktorová; Julius Lukeš; Gertraud Burger
Journal:  RNA Biol       Date:  2016-10-07       Impact factor: 4.652

7.  The large repertoire of 2'-O-methylation guided by C/D snoRNAs on Trypanosoma brucei rRNA.

Authors:  K Shanmugha Rajan; Yinzhou Zhu; Katerina Adler; Tirza Doniger; Smadar Cohen-Chalamish; Ankita Srivastava; Moran Shalev-Benami; Donna Matzov; Ron Unger; Christian Tschudi; Arthur Günzl; Gordon G Carmichael; Shulamit Michaeli
Journal:  RNA Biol       Date:  2020-04-21       Impact factor: 4.652

8.  Trypanosomatid mitochondrial RNA editing: dramatically complex transcript repertoires revealed with a dedicated mapping tool.

Authors:  Evgeny S Gerasimov; Anna A Gasparyan; Iosif Kaurov; Boris Tichý; Maria D Logacheva; Alexander A Kolesnikov; Julius Lukeš; Vyacheslav Yurchenko; Sara L Zimmer; Pavel Flegontov
Journal:  Nucleic Acids Res       Date:  2018-01-25       Impact factor: 16.971

9.  Trypanosome RNA Editing Mediator Complex proteins have distinct functions in gRNA utilization.

Authors:  Rachel M Simpson; Andrew E Bruno; Runpu Chen; Kaylen Lott; Brianna L Tylec; Jonathan E Bard; Yijun Sun; Michael J Buck; Laurie K Read
Journal:  Nucleic Acids Res       Date:  2017-07-27       Impact factor: 16.971

10.  A DNA polymerization-independent role for mitochondrial DNA polymerase I-like protein C in African trypanosomes.

Authors:  Jonathan C Miller; Stephanie B Delzell; Jeniffer Concepción-Acevedo; Michael J Boucher; Michele M Klingbeil
Journal:  J Cell Sci       Date:  2020-05-07       Impact factor: 5.285

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