A CPF-like phosphatase module links transcription termination to chromatin silencing
Open accessPublished version of a preprint
Abstract
The interconnections between co-transcriptional regulation, chromatin environment, and transcriptional output remain poorly understood. Here, we investigate the mechanism underlying RNA 3' processing-mediated Polycomb silencing of Arabidopsis FLOWERING LOCUS C (FLC). We show a requirement for ANTHESIS PROMOTING FACTOR 1 (APRF1), a homolog of yeast Swd2 and human WDR82, known to regulate RNA polymerase II (RNA Pol II) during transcription termination. APRF1 interacts with TYPE ONE SERINE/THREONINE PROTEIN PHOSPHATASE 4 (TOPP4) (yeast Glc7/human PP1) and LUMINIDEPENDENS (LD), the latter showing structural features found in Ref2/PNUTS, all components of the yeast and human phosphatase module of the CPF 3' end-processing machinery. LD has been shown to co-associate in vivo with the histone H3 K4 demethylase FLOWERING LOCUS D (FLD). This work shows how the APRF1/LD-mediated polyadenylation/termination process influences subsequent rounds of transcription by changing the local chromatin environment at FLC.
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Highly accurate protein structure prediction with AlphaFold
Jumper, J., Evans, R., Pritzel, A., Green, T., Figurnov, M., Ronneberger, O., Tunyasuvunakool, K., Bates, R., Žídek, A., Potapenko, A., et al. (2021) · Nature · doi:10.1038/s41586-021-03819-2 · Cited by 43,764 · see citing works
RNA polymerase II speed: a key player in controlling and adapting transcriptome composition
Muniz, L., Nicolas, E., & Trouche, D. (2021) · The EMBO Journal · doi:10.15252/embj.2020105740 · Cited by 203 · see citing works
SCAF4 and SCAF8, mRNA Anti-Terminator Proteins
Gregersen, L. H., Mitter, R., Ugalde, A. P., Nojima, T., Proudfoot, N. J., Agami, R., Stewart, A., & Svejstrup, J. Q. (2019) · Cell · doi:10.1016/j.cell.2019.04.038 · Cited by 140 · see citing works
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- Authors
- Mateo-Bonmatí, E., Montez, M., Maple, R., Fiedler, M., Fang, X., Saalbach, G., Passmore, L. A., & Dean, C.
- Affiliations
- John Innes Centre (GB)
- MRC Laboratory of Molecular Biology (GB)
- Corresponding author
- Dean, Caroline
- ORCID
- Venue
- Molecular Cell
- Publisher
- Elsevier BV
- Published
- 2024-06
- Volume
- 84
- Issue
- 12
- Pages
- 2272-2286.e7
- ISSN
- 1097-2765 (ISSN-L)
- PMC
- PMC7616277
- OpenAlex
- W4399430120
- Cited by
- 30
- References
- 3
- Citations by year
- 2026: 11 · 2025: 10 · 2024: 9
- FWCI
- 7.32
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- Locations
- Molecular Cell (publishedVersion, cc-by)
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion, cc-by)
- DIGITAL.CSIC (Spanish National Research Council (CSIC)) (submittedVersion, cc-by)
- Funders
- Royal Society (RP\u2216R1\u2216180002)
- BBSRC (BB/P013511/1, BB/J004588/1)
- European Commission
- Wellcome Trust (210654/Z/18/Z)
- European Research Council (833254)
- Medical Research Council (225217/Z/22/Z, MC_U105192715)
- Agencia Estatal de Investigación
- Friends Research Institute
- Ministerio de Ciencia e Innovación
- Topics
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Plant Molecular Biology Research
- 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
- Keywords
- FLOWERING LOCUS C, Polycomb silencing, transcription termination, RNA 3' end processing, chromatin silencing, polyadenylation, RNA polymerase II, FLOWERING LOCUS D, Arabidopsis thaliana, co-transcriptional regulation
- MeSH terms
- Chromatin, Histone Deacetylases, Histones, Phosphoprotein Phosphatases, RNA Polymerase II, Arabidopsis, Gene Expression Regulation, Plant, Gene Silencing, MADS Domain Proteins, Arabidopsis Proteins, mRNA Cleavage and Polyadenylation Factors, Transcription Termination, Genetic
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