Evidence map›Paper›PMID 36879017›Full record

ArticleNature plants2023

A gene silencing screen uncovers diverse tools for targeted gene repression in Arabidopsis.

Ming Wang, Zhenhui Zhong, Javier Gallego-Bartolomé, Zheng Li, Suhua Feng, Hsuan Yu Kuo, Ryan L Kan, Hoiyan Lam, John Curtis Richey, Linli Tang and 5 more

Open access · hybridFull text read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nature plants, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.

0numbers the graph read from it
0cells of the map it votes in
25citing papers in PubMed
6.8field-weighted citation impact, top 3% 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

25 citing papers in PubMed, 44 citations in OpenAlex.

  1. Review
  2. Article
  3. Article
  4. Review
  5. Article
  6. Review
  7. Article
  8. A Modular and Customizable CRISPR/Cas Toolkit for Epigenome Editing of Cis-regulatory Modules.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025
    Article
  9. Article
  10. Review
  11. Article
  12. Epigenetics in the modern era of crop improvements.Science China. Life sciences · 2025
    Review
  13. Article
  14. Article
  15. Review
  16. Review
  17. Review
  18. Article
  19. Article
  20. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

15 authors at 3 institutions in 2 countries.

Ming Wang *Department of Molecular, Cell and Developmental Biology, University of California at Los Angeles, Los Angeles, CA, USA.ORCID http://orcid.org/0000-0002-1223-3421
Zhenhui Zhong *Department of Molecular, Cell and Developmental Biology, University of California at Los Angeles, Los Angeles, CA, USA.ORCID http://orcid.org/0000-0002-8438-0375
Javier Gallego-BartoloméDepartment of Molecular, Cell and Developmental Biology, University of California at Los Angeles, Los Angeles, CA, USA.ORCID http://orcid.org/0000-0003-2225-7168
Zheng LiDepartment of Molecular, Cell and Developmental Biology, University of California at Los Angeles, Los Angeles, CA, USA.ORCID http://orcid.org/0000-0003-2174-7851
Suhua FengDepartment of Molecular, Cell and Developmental Biology, University of California at Los Angeles, Los Angeles, CA, USA.
Hsuan Yu KuoDepartment of Molecular, Cell and Developmental Biology, University of California at Los Angeles, Los Angeles, CA, USA.
Ryan L KanDepartment of Molecular, Cell and Developmental Biology, University of California at Los Angeles, Los Angeles, CA, USA.
Hoiyan LamDepartment of Molecular, Cell and Developmental Biology, University of California at Los Angeles, Los Angeles, CA, USA.
John Curtis RicheyDepartment of Molecular, Cell and Developmental Biology, University of California at Los Angeles, Los Angeles, CA, USA.
Linli TangDepartment of Statistics, University of California, Riverside, CA, USA.
Jessica ZhouDepartment of Molecular, Cell and Developmental Biology, University of California at Los Angeles, Los Angeles, CA, USA.
Mukun LiuDepartment of Molecular, Cell and Developmental Biology, University of California at Los Angeles, Los Angeles, CA, USA.
Yasaman Jami-AlahmadiDepartment of Biological Chemistry, University of California at Los Angeles, Los Angeles, CA, USA.
James WohlschlegelDepartment of Biological Chemistry, University of California at Los Angeles, Los Angeles, CA, USA.
Steven E JacobsenDepartment of Molecular, Cell and Developmental Biology, University of California at Los Angeles, Los Angeles, CA, USA. jacobsen@ucla.edu.ORCID http://orcid.org/0000-0001-9483-138X
University of California, Los Angeles · USHoward Hughes Medical Institute · USUniversity of California, Riverside · US

Funding

Bill and Melinda Gates Foundation (Bill & Melinda Gates Foundation) OPP1125410
6 · The paper itself

Abstract

DNA methylation has been utilized for target gene silencing in plants. However, it is not well understood whether other silencing pathways can be also used to manipulate gene expression. Here we performed a gain-of-function screen for proteins that could silence a target gene when fused to an artificial zinc finger. We uncovered many proteins that suppressed gene expression through DNA methylation, histone H3K27me3 deposition, H3K4me3 demethylation, histone deacetylation, inhibition of RNA polymerase II transcription elongation or Ser-5 dephosphorylation. These proteins also silenced many other genes with different efficacies, and a machine learning model could accurately predict the efficacy of each silencer on the basis of various chromatin features of the target loci. Furthermore, some proteins were also able to target gene silencing when used in a dCas9-SunTag system. These results provide a more comprehensive understanding of epigenetic regulatory pathways in plants and provide an armament of tools for targeted gene manipulation.

Indexed as

ArabidopsisArabidopsis ProteinsGene ExpressionGene Expression Regulation, PlantGene SilencingHistonesArabidopsis ProteinsHistones

Identifiers

PMID36879017
PMCPMC10027610
OpenAlexW4323320045

What OpenQuestion holds

Textfull text, public
LicenceCC BY
measurements read36
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.