Evidence map›Paper›PMID 33293544›Full record

ArticleNature communications2020

An epigenetic gene silencing pathway selectively acting on transgenic DNA in the green alga Chlamydomonas.

Juliane Neupert, Sean D Gallaher, Yinghong Lu, Daniela Strenkert, Na'ama Segal, Rouhollah Barahimipour, Sorel T Fitz-Gibbon, Michael Schroda, Sabeeha S Merchant, Ralph Bock

Erratum issuedOpen access · goldAbstract read
In one paragraph

Article in Nature communications, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 50 papers.

0numbers the graph read from it
0cells of the map it votes in
50citing papers in PubMed
4.9field-weighted citation impact, top 4% 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

50 citing papers in PubMed, 98 citations in OpenAlex.

  1. Transfer of chloroplastSynthetic and systems biotechnology · 2027
    Article
  2. Review
  3. Review
  4. Article
  5. Article
  6. Article
  7. Article
  8. Article
  9. Article
  10. Article
  11. Article
  12. The Elements of Life, Photosynthesis and Genomics.Journal of molecular biology · 2025
    Review
  13. Review
  14. Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. The red algaProceedings of the National Academy of Sciences of the United States of America · 2024
    Article
  20. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

10 authors at 4 institutions in 3 countries.

Juliane NeupertMax-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, D-14476, Potsdam-Golm, Germany.
Sean D GallaherUniversity of California Los Angeles, Department of Chemistry and Biochemistry, and Institute for Genomics and Proteomics, 607 Charles E. Young Dr. East, Los Angeles, CA, 90095, USA.ORCID http://orcid.org/0000-0002-9773-6051
Yinghong LuMax-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, D-14476, Potsdam-Golm, Germany.
Daniela StrenkertMax-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, D-14476, Potsdam-Golm, Germany.
Na'ama SegalMax-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, D-14476, Potsdam-Golm, Germany.
Rouhollah BarahimipourMax-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, D-14476, Potsdam-Golm, Germany.ORCID http://orcid.org/0000-0002-5340-0716
Sorel T Fitz-GibbonUniversity of California Los Angeles, Department of Molecular, Cell and Developmental Biology, 610 Charles E. Young Dr. South, Los Angeles, CA, 90095, USA.ORCID http://orcid.org/0000-0001-7090-5719
Michael SchrodaMax-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, D-14476, Potsdam-Golm, Germany.ORCID http://orcid.org/0000-0001-6872-0483
Sabeeha S MerchantUniversity of California Los Angeles, Department of Chemistry and Biochemistry, and Institute for Genomics and Proteomics, 607 Charles E. Young Dr. East, Los Angeles, CA, 90095, USA.ORCID http://orcid.org/0000-0002-2594-509X
Ralph BockMax-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, D-14476, Potsdam-Golm, Germany. rbock@mpimp-golm.mpg.de.ORCID http://orcid.org/0000-0001-7502-6940
Max Planck Institute of Molecular Plant Physiology · DEUniversity of California, Los Angeles · USNanjing University of Science and Technology · CNUniversity of Kaiserslautern · DE

Funding

Pacific Biosciences PacBio RS Single Molecule Real Time SequencerS10OD018174 · OD · UNIVERSITY OF CALIFORNIA BERKELEY · PI ROKHSAR, DANIEL SOLEYMAN · 2014 to 2014
$600k
NIH HHS S10 OD018174
6 · The paper itself

Abstract

Silencing of exogenous DNA can make transgene expression very inefficient. Genetic screens in the model alga Chlamydomonas have demonstrated that transgene silencing can be overcome by mutations in unknown gene(s), thus producing algal strains that stably express foreign genes to high levels. Here, we show that the silencing mechanism specifically acts on transgenic DNA. Once a permissive chromatin structure has assembled, transgene expression can persist even in the absence of mutations disrupting the silencing pathway. We have identified the gene conferring the silencing and show it to encode a sirtuin-type histone deacetylase. Loss of gene function does not appreciably affect endogenous gene expression. Our data suggest that transgenic DNA is recognized and then quickly inactivated by the assembly of a repressive chromatin structure composed of deacetylated histones. We propose that this mechanism may have evolved to provide protection from potentially harmful types of environmental DNA.

Indexed as

Gene Expression Regulation, PlantGene SilencingChlamydomonasMutationPhylogenyPlants, Genetically ModifiedTransformation, GeneticTransgenesWhole Genome Sequencing

Identifiers

PMID33293544
PMCPMC7722844
OpenAlexW3112153187

What Socratic 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 Socratic graph.