Literature DB >> 18552771

Transfer RNA genes in pieces.

Lennart Randau1, Dieter Söll.   

Abstract

The short genes encoding transfer RNA (tRNA) molecules are highly conserved in both sequence and structure, reflecting the central role of tRNA in protein biosynthesis. The frequent occurrence of fragmented intron-containing tRNAs that require processing to form contiguous molecules is therefore surprising. Recent discoveries of permuted and split tRNA genes have added to the apparent creativity of nature regarding the organization of these fragmented genes. Here, we provide an overview of the various types of fragmented tRNA genes and examine the hypothesis that the integration of mobile genetic elements--including viruses and plasmids--established such genes in pieces.

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Year:  2008        PMID: 18552771      PMCID: PMC2475316          DOI: 10.1038/embor.2008.101

Source DB:  PubMed          Journal:  EMBO Rep        ISSN: 1469-221X            Impact factor:   8.807


  49 in total

1.  tRNA creation by hairpin duplication.

Authors:  Jeremy Widmann; Massimo Di Giulio; Michael Yarus; Rob Knight
Journal:  J Mol Evol       Date:  2005-09-12       Impact factor: 2.395

2.  Two different mechanisms for tRNA ribose methylation in Archaea: a short survey.

Authors:  Béatrice Clouet-d'Orval; Christine Gaspin; Annie Mougin
Journal:  Biochimie       Date:  2005-03-07       Impact factor: 4.079

3.  The complete set of tRNA species in Nanoarchaeum equitans.

Authors:  Lennart Randau; Michael Pearson; Dieter Söll
Journal:  FEBS Lett       Date:  2005-05-23       Impact factor: 4.124

4.  Structure and genome organization of AFV2, a novel archaeal lipothrixvirus with unusual terminal and core structures.

Authors:  Monika Häring; Gisle Vestergaard; Kim Brügger; Reinhard Rachel; Roger A Garrett; David Prangishvili
Journal:  J Bacteriol       Date:  2005-06       Impact factor: 3.490

5.  Structure, function, and evolution of the tRNA endonucleases of Archaea: an example of subfunctionalization.

Authors:  Giuseppe D Tocchini-Valentini; Paolo Fruscoloni; Glauco P Tocchini-Valentini
Journal:  Proc Natl Acad Sci U S A       Date:  2005-06-03       Impact factor: 11.205

6.  Functional reconstitution of a crenarchaeal splicing endonuclease in vitro.

Authors:  Shigeo Yoshinari; Shinji Fujita; Ryoji Masui; Seiki Kuramitsu; Shin-ichi Yokobori; Kiyoshi Kita; Yoh-ichi Watanabe
Journal:  Biochem Biophys Res Commun       Date:  2005-09-09       Impact factor: 3.575

Review 7.  Transfer RNA gene-targeted integration: an adaptation of retrotransposable elements to survive in the compact Dictyostelium discoideum genome.

Authors:  T Winckler; K Szafranski; G Glöckner
Journal:  Cytogenet Genome Res       Date:  2005       Impact factor: 1.636

8.  Structural characterization of the catalytic subunit of a novel RNA splicing endonuclease.

Authors:  Kate Calvin; Michelle D Hall; Fangmin Xu; Song Xue; Hong Li
Journal:  J Mol Biol       Date:  2005-09-30       Impact factor: 5.469

9.  The heteromeric Nanoarchaeum equitans splicing endonuclease cleaves noncanonical bulge-helix-bulge motifs of joined tRNA halves.

Authors:  Lennart Randau; Kate Calvin; Michelle Hall; Jing Yuan; Mircea Podar; Hong Li; Dieter Söll
Journal:  Proc Natl Acad Sci U S A       Date:  2005-12-05       Impact factor: 11.205

10.  Nanoarchaea: representatives of a novel archaeal phylum or a fast-evolving euryarchaeal lineage related to Thermococcales?

Authors:  Celine Brochier; Simonetta Gribaldo; Yvan Zivanovic; Fabrice Confalonieri; Patrick Forterre
Journal:  Genome Biol       Date:  2005-04-14       Impact factor: 13.583

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  41 in total

1.  Unassigned codons, nonsense suppression, and anticodon modifications in the evolution of the genetic code.

Authors:  Peter T S van der Gulik; Wouter D Hoff
Journal:  J Mol Evol       Date:  2011-11-11       Impact factor: 2.395

2.  A comparison among the models proposed to explain the origin of the tRNA molecule: A synthesis.

Authors:  Massimo Di Giulio
Journal:  J Mol Evol       Date:  2009-06-02       Impact factor: 2.395

Review 3.  Import of tRNAs and aminoacyl-tRNA synthetases into mitochondria.

Authors:  Anne-Marie Duchêne; Claire Pujol; Laurence Maréchal-Drouard
Journal:  Curr Genet       Date:  2008-12-16       Impact factor: 3.886

4.  Tri-split tRNA is a transfer RNA made from 3 transcripts that provides insight into the evolution of fragmented tRNAs in archaea.

Authors:  Kosuke Fujishima; Junichi Sugahara; Kaoru Kikuta; Reiko Hirano; Asako Sato; Masaru Tomita; Akio Kanai
Journal:  Proc Natl Acad Sci U S A       Date:  2009-02-03       Impact factor: 11.205

5.  Mapping the RNA-Seq trash bin: unusual transcripts in prokaryotic transcriptome sequencing data.

Authors:  Gero Doose; Maria Alexis; Rebecca Kirsch; Sven Findeiß; David Langenberger; Rainer Machné; Mario Mörl; Steve Hoffmann; Peter F Stadler
Journal:  RNA Biol       Date:  2013-05-13       Impact factor: 4.652

6.  Transfer RNA genes in pieces are an ancestral character.

Authors:  Massimo Di Giulio
Journal:  EMBO Rep       Date:  2008-09       Impact factor: 8.807

7.  Formal proof that the split genes of tRNAs of Nanoarchaeum equitans are an ancestral character.

Authors:  Massimo Di Giulio
Journal:  J Mol Evol       Date:  2009-09-17       Impact factor: 2.395

8.  Disrupted tRNA gene diversity and possible evolutionary scenarios.

Authors:  Junichi Sugahara; Kosuke Fujishima; Keisuke Morita; Masaru Tomita; Akio Kanai
Journal:  J Mol Evol       Date:  2009-10-14       Impact factor: 2.395

Review 9.  Transfer RNA processing in archaea: unusual pathways and enzymes.

Authors:  Ilka U Heinemann; Dieter Söll; Lennart Randau
Journal:  FEBS Lett       Date:  2010-01-21       Impact factor: 4.124

10.  A trans-splicing group I intron and tRNA-hyperediting in the mitochondrial genome of the lycophyte Isoetes engelmannii.

Authors:  Felix Grewe; Prisca Viehoever; Bernd Weisshaar; Volker Knoop
Journal:  Nucleic Acids Res       Date:  2009-06-23       Impact factor: 16.971

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