Literature DB >> 26572691

U-Insertion/Deletion mRNA-Editing Holoenzyme: Definition in Sight.

Inna Aphasizheva1, Ruslan Aphasizhev2.   

Abstract

RNA editing is a process that alters DNA-encoded sequences and is distinct from splicing, 5' capping, and 3' additions. In 30 years since editing was discovered in mitochondria of trypanosomes, several functionally and evolutionarily unrelated mechanisms have been described in eukaryotes, archaea, and viruses. Editing events are predominantly post-transcriptional and include nucleoside insertions and deletions, and base substitutions and modifications. Here, we review the mechanism of uridine insertion/deletion mRNA editing in kinetoplastid protists typified by Trypanosoma brucei. This type of editing corrects frameshifts, introduces translation punctuation signals, and often adds hundreds of uridines to create protein-coding sequences. We focus on protein complexes responsible for editing reactions and their interactions with other elements of the mitochondrial gene expression pathway.
Copyright © 2015 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  RNA editing; Trypanosoma; guide RNA; mitochondria; polyadenylation; translation

Mesh:

Substances:

Year:  2015        PMID: 26572691      PMCID: PMC4737982          DOI: 10.1016/j.pt.2015.10.004

Source DB:  PubMed          Journal:  Trends Parasitol        ISSN: 1471-4922


  110 in total

1.  On the possibility of constructive neutral evolution.

Authors:  A Stoltzfus
Journal:  J Mol Evol       Date:  1999-08       Impact factor: 2.395

2.  The mitochondrial RNA ligase from Leishmania tarentolae can join RNA molecules bridged by a complementary RNA.

Authors:  V Blanc; J D Alfonzo; R Aphasizhev; L Simpson
Journal:  J Biol Chem       Date:  1999-08-20       Impact factor: 5.157

3.  Association of guide RNA binding protein gBP21 with active RNA editing complexes in Trypanosoma brucei.

Authors:  T E Allen; S Heidmann; R Reed; P J Myler; H U Göringer; K D Stuart
Journal:  Mol Cell Biol       Date:  1998-10       Impact factor: 4.272

4.  Complexes from Trypanosoma brucei that exhibit deletion editing and other editing-associated properties.

Authors:  R A Corell; L K Read; G R Riley; J K Nellissery; T E Allen; M L Kable; M D Wachal; S D Seiwert; P J Myler; K D Stuart
Journal:  Mol Cell Biol       Date:  1996-04       Impact factor: 4.272

5.  Purification of a functional enzymatic editing complex from Trypanosoma brucei mitochondria.

Authors:  L N Rusché; J Cruz-Reyes; K J Piller; B Sollner-Webb
Journal:  EMBO J       Date:  1997-07-01       Impact factor: 11.598

6.  Mitochondrial glutamate dehydrogenase from Leishmania tarentolae is a guide RNA-binding protein.

Authors:  F Bringaud; R Stripecke; G C Frech; S Freedland; C Turck; E M Byrne; L Simpson
Journal:  Mol Cell Biol       Date:  1997-07       Impact factor: 4.272

7.  Trypanosoma brucei gBP21. An arginine-rich mitochondrial protein that binds to guide RNA with high affinity.

Authors:  J Köller; U F Müller; B Schmid; A Missel; V Kruft; K Stuart; H U Göringer
Journal:  J Biol Chem       Date:  1997-02-07       Impact factor: 5.157

8.  Disruption of a gene encoding a novel mitochondrial DEAD-box protein in Trypanosoma brucei affects edited mRNAs.

Authors:  A Missel; A E Souza; G Nörskau; H U Göringer
Journal:  Mol Cell Biol       Date:  1997-09       Impact factor: 4.272

9.  Trypanosoma brucei RBP16 is a mitochondrial Y-box family protein with guide RNA binding activity.

Authors:  M L Hayman; L K Read
Journal:  J Biol Chem       Date:  1999-04-23       Impact factor: 5.157

10.  Trypanosoma brucei mitochondria contain RNA helicase activity.

Authors:  A Missel; H U Göringer
Journal:  Nucleic Acids Res       Date:  1994-10-11       Impact factor: 16.971

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  34 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

Review 5.  The role of 3' end uridylation in RNA metabolism and cellular physiology.

Authors:  Dagmar Zigáčková; Štěpánka Vaňáčová
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2018-11-05       Impact factor: 6.237

6.  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 7.  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

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

Review 10.  Lexis and Grammar of Mitochondrial RNA Processing in Trypanosomes.

Authors:  Inna Aphasizheva; Juan Alfonzo; Jason Carnes; Igor Cestari; Jorge Cruz-Reyes; H Ulrich Göringer; Stephen Hajduk; Julius Lukeš; Susan Madison-Antenucci; Dmitri A Maslov; Suzanne M McDermott; Torsten Ochsenreiter; Laurie K Read; Reza Salavati; Achim Schnaufer; André Schneider; Larry Simpson; Kenneth Stuart; Vyacheslav Yurchenko; Z Hong Zhou; Alena Zíková; Liye Zhang; Sara Zimmer; Ruslan Aphasizhev
Journal:  Trends Parasitol       Date:  2020-02-28
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