Evidence map›Paper›PMID 29186571›Full record

ArticleNucleic acids research2018

Oxygen gradients can determine epigenetic asymmetry and cellular differentiation via differential regulation of Tet activity in embryonic stem cells.

Simon Burr, Anna Caldwell, Mei Chong, Matteo Beretta, Stephen Metcalf, Matthew Hancock, Matthew Arno, Sucharitha Balu, Valeria Leon Kropf, Rajesh K Mistry and 3 more

Open access · goldAbstract read
In one paragraph

Article in Nucleic acids research, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.

0numbers the graph read from it
0cells of the map it votes in
28citing papers in PubMed
1.5field-weighted citation impact, top 18% 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

28 citing papers in PubMed, 56 citations in OpenAlex.

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  16. Spectroscopic and in vitro Investigations of FeChembiochem : a European journal of chemical biology · 2022
    Review
  17. NOS2 andProceedings of the National Academy of Sciences of the United States of America · 2022
    Article
  18. 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

13 authors at 2 institutions in 1 country.

Simon BurrBritish Heart Foundation Centre of Research Excellence, Department of Cardiology, King's College London, London SE5 9NU, UK.
Anna CaldwellKing's Centre of Excellence for Mass Spectrometry, King's College London, London SE1 9NH, UK.
Mei ChongBritish Heart Foundation Centre of Research Excellence, Department of Cardiology, King's College London, London SE5 9NU, UK.
Matteo BerettaBritish Heart Foundation Centre of Research Excellence, Department of Cardiology, King's College London, London SE5 9NU, UK.
Stephen MetcalfBritish Heart Foundation Centre of Research Excellence, Department of Cardiology, King's College London, London SE5 9NU, UK.
Matthew HancockBritish Heart Foundation Centre of Research Excellence, Department of Cardiology, King's College London, London SE5 9NU, UK.
Matthew ArnoKing's Genomic Centre, King's College London, London SE1 9NH, UK.
Sucharitha BaluKing's Genomic Centre, King's College London, London SE1 9NH, UK.
Valeria Leon KropfBritish Heart Foundation Centre of Research Excellence, Department of Cardiology, King's College London, London SE5 9NU, UK.
Rajesh K MistryBritish Heart Foundation Centre of Research Excellence, Department of Cardiology, King's College London, London SE5 9NU, UK.
Ajay M ShahBritish Heart Foundation Centre of Research Excellence, Department of Cardiology, King's College London, London SE5 9NU, UK.
Giovanni E MannBritish Heart Foundation Centre of Research Excellence, Department of Cardiology, King's College London, London SE5 9NU, UK.
Alison C BrewerBritish Heart Foundation Centre of Research Excellence, Department of Cardiology, King's College London, London SE5 9NU, UK.
British Heart Foundation · GBKing's College London · GB

Funding

British Heart Foundation IG/16/2/32273British Heart Foundation PG/08/110/26228British Heart Foundation PG/15/119/31970British Heart Foundation PG/15/27/31374British Heart Foundation RG/13/11/30384
6 · The paper itself

Abstract

Graded levels of molecular oxygen (O2) exist within developing mammalian embryos and can differentially regulate cellular specification pathways. During differentiation, cells acquire distinct epigenetic landscapes, which determine their function, however the mechanisms which regulate this are poorly understood. The demethylation of 5-methylcytosine (5mC) is achieved via successive oxidation reactions catalysed by the Ten-Eleven-Translocation (Tet) enzymes, yielding the 5-hydroxymethylcytosine (5hmC) intermediate. These require O2 as a co-factor, and hence may link epigenetic processes directly to O2 gradients during development. We demonstrate that the activities of Tet enzymes display distinct patterns of [O2]-dependency, and that Tet1 activity, specifically, is subject to differential regulation within a range of O2 which is physiologically relevant in embryogenesis. Further, differentiating embryonic stem cells displayed a transient burst of 5hmC, which was both dependent upon Tet1 and inhibited by low (1%) [O2]. A GC-rich promoter region within the Tet3 locus was identified as a significant target of this 5mC-hydroxylation. Further, this region was shown to associate with Tet1, and display the histone epigenetic marks, H3K4me3 and H3K27me3, which are characteristic of a bivalent, developmentally 'poised' promoter. We conclude that Tet1 activity, determined by [O2] may play a critical role in regulating cellular differentiation and fate in embryogenesis.

Indexed as

Epigenesis, GeneticGene Expression Regulation, Developmental5-MethylcytosineAmino Acids, DicarboxylicAnimalsCell DifferentiationCell HypoxiaCell LineDemethylationDioxygenasesEmbryoid BodiesHEK293 CellsHistonesHumansHydroxylationMice5-hydroxymethylcytosine5-MethylcytosineAmino Acids, DicarboxylicDioxygenasesHistonesMixed Function OxygenasesoxalylglycineOxygenProtein IsoformsProto-Oncogene ProteinsTET1 protein, humanTET3 protein, human

Identifiers

PMID29186571
PMCPMC5814828
OpenAlexW2769365401

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
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.