Subnuclear partitioning of rRNA genes between the nucleolus and nucleoplasm reflects alternative epiallelic states
Open accessAbstract
Eukaryotes can have thousands of 45S ribosomal RNA (rRNA) genes, many of which are silenced during development. Using fluorescence-activated sorting techniques, we show that active rRNA genes in Arabidopsis thaliana are present within sorted nucleoli, whereas silenced rRNA genes are excluded. DNA methyltransferase (met1), histone deacetylase (hda6), or chromatin assembly (caf1) mutants that disrupt silencing abrogate this nucleoplasmic–nucleolar partitioning. Bisulfite sequencing data indicate that active nucleolar rRNA genes are nearly completely demethylated at promoter CGs, whereas silenced genes are nearly fully methylated. Collectively, the data reveal that rRNA genes occupy distinct but changeable nuclear territories according to their epigenetic state.
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Only a part of rDNA units is transcriptionally active at any time, while the rest, or even the majority of rDNA repeats, are in a repressed state.
“Numerous genetic, microscopic and biochemical studies have demonstrated that only a part of rDNA units is transcriptionally active at any time, while the rest, or even the majority of rDNA repeats, are in a repressed state (6–14).”
From Impaired function of rDNA transcription initiation machinery leads to derepression of ribosomal genes with insertions of R2 retrotransposon (2022) · cites this paper as [13]
The MET1-dependent CG methylation section reports that approximately half of the rRNA gene pool is silenced in Arabidopsis, supporting the claim that only a portion is active. The paper does not establish that a majority of repeats is repressed; its reported proportion is approximately half. (LLM, conf=0.86)
Experimental — accuracy not yet measured
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
No references could be resolved yet.
Research works printed but not linked: 1
- Hannan KM, Sanij E, Rothblum LI, Hannan RD, Pearson RB. 2013. Dysregulation of RNA polymerase I transcription during disease. Biochim Biophys Acta 1829: 342-360.
Cited by
Sorted by citations
Mozgova, I., Wildhaber, T., Trejo‐Arellano, M. S., Fajkus, J., Roszak, P., Köhler, C., & Hennig, L. (2018) · New Phytologist · doi:10.1111/nph.15082 · Cited by 37 · see citing works
Self-citationFefelova, E. A., Pleshakova, I. M., Mikhaleva, E. A., Pirogov, S. A., Poltorachenko, V. A., Abramov, Y. A., Romashin, D. D., Shatskikh, A. S., Blokh, R. S., Gvozdev, V. A., et al. (2022) · Nucleic Acids Research · doi:10.1093/nar/gkab1276 · Cited by 15 · see citing works
- Authors
- Pontvianne, F., Blevins, T., Chandrasekhara, C., Mozgová, I., Hassel, C., Pontes, O. M. F., Tucker, S., Mokroš, P., Muchová, V., Fajkus, J., & Pikaard, C. S.
- Affiliations
- Howard Hughes Medical Institute (US)
- Indiana University Bloomington (US)
- Central European Institute of Technology (CZ)
- University of New Mexico (US)
- Washington University in St. Louis (US)
- Venue
- Genes & Development
- Publisher
- Cold Spring Harbor Laboratory
- Published
- 2013-07-15
- Volume
- 27
- Issue
- 14
- Pages
- 1545-1550
- ISSN
- 0890-9369 (ISSN-L)
- 1549-5477
- PMC
- PMC3731543
- OpenAlex
- W2157172795
- Cited by
- 130
- References
- 0
- Citations by year
- 2026: 4 · 2025: 2 · 2024: 5 · 2023: 11 · 2022: 4 · 2021: 13 · 2020: 14 · 2019: 15 · 2018: 9 · 2017: 13 · 2016: 17 · 2015: 10 · 2014: 12
- Type
- posted content
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- other-oa
- Locations
- Genes & Development (publishedVersion, other-oa)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- HAL (submittedVersion, other-oa)
- Funders
- Howard Hughes Medical Institute
- Gordon and Betty Moore Foundation
- Grantová Agentura České Republiky (CZ.1.05/1.1.00/02.0068, GAP501/11/0289)
- Central European Institute of Technology (CZ.1.05/1.1.00/02.0068., CZ.1.05/1.1.00/02)
- National Institutes of Health
- European Regional Development Fund (CZ.1.05/1.100/02.0068, CEITEC CZ.1.05/1.1.00/02.0068, 1.05/1.1.00/02.0068)
- National Institute of General Medical Sciences (R01GM060380, GM60380)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Nuclear Structure and Function
- Keywords
- nucleolus, nucleoplasm, DNA methylation, Arabidopsis thaliana, epigenetic inheritance, MET1, HDA6, CAF-1, chromatin silencing, ribosome biogenesis
- MeSH terms
- Cell Nucleolus, Cell Nucleus, Models, Genetic, Mutation, RNA, Ribosomal, Arabidopsis, Gene Expression Regulation, Plant, DNA Methylation, Gene Silencing, Arabidopsis Proteins, Epigenesis, Genetic
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
