Evidence map›Paper›PMID 39223305›Full record

ArticleNature plants2024

Retrotransposon addiction promotes centromere function via epigenetically activated small RNAs.

Atsushi Shimada, Jonathan Cahn, Evan Ernst, Jason Lynn, Daniel Grimanelli, Ian Henderson, Tetsuji Kakutani, Robert A Martienssen

Abstract read
In one paragraph

Article in Nature plants, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.

0numbers the graph read from it
0cells of the map it votes in
16citing papers in PubMed
–field-weighted citation impact
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

16 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Review
  5. Article
  6. Article
  7. Article
  8. Article
  9. Article
  10. Review
  11. Fungi as models of centromere innovation: from DNA sequence to 3-dimensional arrangement.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2025
    Review
  12. Article
  13. Article
  14. Article
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  16. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

8 authors.

Atsushi ShimadaHoward Hughes Medical Institute, Cold Spring Harbor Laboratory, New York, NY, USA.
Jonathan CahnHoward Hughes Medical Institute, Cold Spring Harbor Laboratory, New York, NY, USA.ORCID http://orcid.org/0000-0002-5006-741X
Evan ErnstHoward Hughes Medical Institute, Cold Spring Harbor Laboratory, New York, NY, USA.ORCID http://orcid.org/0000-0003-4213-136X
Jason LynnHoward Hughes Medical Institute, Cold Spring Harbor Laboratory, New York, NY, USA.ORCID http://orcid.org/0000-0002-7586-4677
Daniel GrimanelliDIADE, IRD-CIRAD, Université de Montpellier, Montpellier, France.ORCID http://orcid.org/0000-0001-5424-114X
Ian HendersonDepartment of Plant Sciences, Cambridge University, Cambridge, UK.ORCID http://orcid.org/0000-0001-5066-1489
Tetsuji KakutaniFaculty of Science, The University of Tokyo, Tokyo, Japan.ORCID http://orcid.org/0000-0002-6137-4474
Robert A MartienssenHoward Hughes Medical Institute, Cold Spring Harbor Laboratory, New York, NY, USA. martiens@cshl.edu.ORCID http://orcid.org/0000-0003-1285-9608

Funding

Single-Cell Biology Shared ResourceP30CA045508 · NCI · COLD SPRING HARBOR LABORATORY · PI John Edward Moses · 1987 to 2026
$118.9M
RNA Interference and Heterochromatic Silencing in Replication and QuiescenceR35GM144206 · NIGMS · COLD SPRING HARBOR LABORATORY · PI ROBERT A MARTIENSSEN · 2022 to 2026
$2.2M
Agence Nationale de la Recherche (French National Research Agency) ANR-12-BCV2-0013NCI NIH HHS P30 CA045508NIGMS NIH HHS R35 GM144206U.S. Department of Health & Human Services | NIH | National Institute of General Medical Sciences (NIGMS) R35GM144206
6 · The paper itself

Abstract

Retrotransposons have invaded eukaryotic centromeres in cycles of repeat expansion and purging, but the function of centromeric retrotransposons has remained unclear. In Arabidopsis, centromeric ATHILA retrotransposons give rise to epigenetically activated short interfering RNAs in mutants in DECREASE IN DNA METHYLATION1 (DDM1). Here we show that mutants that lose both DDM1 and RNA-dependent RNA polymerase have pleiotropic developmental defects and mis-segregate chromosome 5 during mitosis. Fertility and segregation defects are epigenetically inherited with centromere 5, and can be rescued by directing artificial small RNAs to ATHILA5 retrotransposons that interrupt tandem satellite repeats. Epigenetically activated short interfering RNAs promote pericentromeric condensation, chromosome cohesion and chromosome segregation in mitosis. We propose that insertion of ATHILA silences centromeric transcription, while simultaneously making centromere function dependent on retrotransposon small RNAs in the absence of DDM1. Parallels are made with the fission yeast Schizosaccharomyces pombe, where chromosome cohesion depends on RNA interference, and with humans, where chromosome segregation depends on both RNA interference and HELLS

Indexed as

ArabidopsisArabidopsis ProteinsCentromereEpigenesis, GeneticRetroelementsRNA, Small InterferingChromosome SegregationDNA-Binding ProteinsRNA, PlantTranscription FactorsArabidopsis ProteinsDDM1 protein, ArabidopsisDNA-Binding ProteinsRetroelementsRNA, PlantRNA, Small InterferingTranscription Factors

Identifiers

PMID39223305
PMCPMC11410651

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Registered trials

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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.