Evidence map›Paper›PMID 25845597›Full record

ArticleNucleic acids research2015

A common tRNA modification at an unusual location: the discovery of wyosine biosynthesis in mitochondria.

Paul J Sample, Luděk Kořený, Zdeněk Paris, Kirk W Gaston, Mary Anne T Rubio, Ian M C Fleming, Scott Hinger, Eva Horáková, Patrick A Limbach, Julius Lukeš and 1 more

Open access · goldAbstract read
In one paragraph

Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.

0numbers the graph read from it
0cells of the map it votes in
17citing papers in PubMed
2.4field-weighted citation impact, top 11% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

17 citing papers in PubMed, 26 citations in OpenAlex.

  1. Article
  2. Article
  3. The life and times of a tRNA.RNA (New York, N.Y.) · 2023
    Review
  4. Review
  5. A Census and Categorization Method of Epitranscriptomic Marks.International journal of molecular sciences · 2020
    Review
  6. The chemical diversity of RNA modifications.The Biochemical journal · 2019
    Review
  7. Review
  8. Article
  9. Article
  10. Review
  11. Review
  12. Article
  13. Article
  14. Review
  15. Article
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

11 authors at 4 institutions in 3 countries.

Paul J SampleDepartment of Microbiology and The Center for RNA Biology, The Ohio State University, Columbus, OH 43210, USA.
Luděk KořenýInstitute of Parasitology, Biology Centre and Faculty of Sciences, University of South Bohemia, 37005 České Budějovice (Budweis), Czech Republic.
Zdeněk ParisDepartment of Microbiology and The Center for RNA Biology, The Ohio State University, Columbus, OH 43210, USA.
Kirk W GastonRieveschl Laboratories for Mass Spectrometry, Department of Chemistry, University of Cincinnati, Cincinnati, OH 45221, USA.
Mary Anne T RubioDepartment of Microbiology and The Center for RNA Biology, The Ohio State University, Columbus, OH 43210, USA.
Ian M C FlemingDepartment of Microbiology and The Center for RNA Biology, The Ohio State University, Columbus, OH 43210, USA.
Scott HingerDepartment of Microbiology and The Center for RNA Biology, The Ohio State University, Columbus, OH 43210, USA.
Eva HorákováInstitute of Parasitology, Biology Centre and Faculty of Sciences, University of South Bohemia, 37005 České Budějovice (Budweis), Czech Republic.
Patrick A LimbachRieveschl Laboratories for Mass Spectrometry, Department of Chemistry, University of Cincinnati, Cincinnati, OH 45221, USA.
Julius LukešInstitute of Parasitology, Biology Centre and Faculty of Sciences, University of South Bohemia, 37005 České Budějovice (Budweis), Czech Republic Canadian Institute For Advanced Research, Toronto, ON M5G 1Z8, Canada.
Juan D AlfonzoDepartment of Microbiology and The Center for RNA Biology, The Ohio State University, Columbus, OH 43210, USA Rieveschl Laboratories for Mass Spectrometry, Department of Chemistry, University of Cincinnati, Cincinnati, OH 45221, USA Ohio State Biochemistry Program, The Ohio State University, Columbus, Ohio 43210, USA alfonzo.1@osu.edu.
The Ohio State University · USUniversity of Cincinnati · USCzech Academy of Sciences, Biology Centre · CZUniversity of South Bohemia in České Budějovice · CZ

Funding

UPLC for Enhanced Mass Spectrometry of Modified RNAsR01GM058843 · NIGMS · UNIVERSITY OF CINCINNATI · PI LIMBACH, PATRICK A · 1999 to 2025
$5.1M
tRNA editing by deamination: Balancing affinity and specifictyR01GM084065 · NIGMS · OHIO STATE UNIVERSITY · PI ALFONZO, JUAN D · 2008 to 2021
$4.0M
Mass Spectrometry of Ribosomal RNA:Protein InteractionsR56GM058843 · NIGMS · UNIVERSITY OF CINCINNATI · PI LIMBACH, PATRICK A · 2009 to 2009
$330k
NIGMS NIH HHS GM058843NIGMS NIH HHS GM084065NIGMS NIH HHS R01 GM058843NIGMS NIH HHS R01 GM084065
6 · The paper itself

Abstract

Establishment of the early genetic code likely required strategies to ensure translational accuracy and inevitably involved tRNA post-transcriptional modifications. One such modification, wybutosine/wyosine is crucial for translational fidelity in Archaea and Eukarya; yet it does not occur in Bacteria and has never been described in mitochondria. Here, we present genetic, molecular and mass spectromery data demonstrating the first example of wyosine in mitochondria, a situation thus far unique to kinetoplastids. We also show that these modifications are important for mitochondrial function, underscoring their biological significance. This work focuses on TyW1, the enzyme required for the most critical step of wyosine biosynthesis. Based on molecular phylogeny, we suggest that the kinetoplastids pathways evolved via gene duplication and acquisition of an FMN-binding domain now prevalent in TyW1 of most eukaryotes. These findings are discussed in the context of the extensive U-insertion RNA editing in trypanosome mitochondria, which may have provided selective pressure for maintenance of mitochondrial wyosine in this lineage.

Indexed as

GuanosineMitochondriaProtozoan ProteinsRNA Processing, Post-TranscriptionalRNA, TransferTrypanosoma brucei bruceiGuanosineProtozoan ProteinsRNA, Transferwyosine

Identifiers

PMID25845597
PMCPMC4417183
OpenAlexW2068741730

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.