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Noncoding SNPs influence a distinct phase of Polycomb silencing to destabilize long-term epigenetic memory at Arabidopsis FLC

In Arabidopsis thaliana, the cold-induced epigenetic regulation of FLOWERING LOCUS C (FLC) involves distinct phases of Polycomb repressive complex 2 (PRC2) silencing. During cold, a PHD–PRC2 complex metastably and digitally nucleates H3K27me3 within FLC. On return to warm, PHD–PRC2 spreads across th...

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Autores principales: Qüesta, Julia I., Antoniou-Kourounioti, Rea L., Rosa, Stefanie, Li, Peijin, Duncan, Susan, Whittaker, Charles, Howard, Martin, Dean, Caroline
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Cold Spring Harbor Laboratory Press 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7050481/
https://www.ncbi.nlm.nih.gov/pubmed/32001513
http://dx.doi.org/10.1101/gad.333245.119
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author Qüesta, Julia I.
Antoniou-Kourounioti, Rea L.
Rosa, Stefanie
Li, Peijin
Duncan, Susan
Whittaker, Charles
Howard, Martin
Dean, Caroline
author_facet Qüesta, Julia I.
Antoniou-Kourounioti, Rea L.
Rosa, Stefanie
Li, Peijin
Duncan, Susan
Whittaker, Charles
Howard, Martin
Dean, Caroline
author_sort Qüesta, Julia I.
collection PubMed
description In Arabidopsis thaliana, the cold-induced epigenetic regulation of FLOWERING LOCUS C (FLC) involves distinct phases of Polycomb repressive complex 2 (PRC2) silencing. During cold, a PHD–PRC2 complex metastably and digitally nucleates H3K27me3 within FLC. On return to warm, PHD–PRC2 spreads across the locus delivering H3K27me3 to maintain long-term silencing. Here, we studied natural variation in this process in Arabidopsis accessions, exploring Lov-1, which shows FLC reactivation on return to warm, a feature characteristic of FLC in perennial Brassicaceae. This analysis identifies an additional phase in this Polycomb silencing mechanism downstream from H3K27me3 spreading. In this long-term silencing (perpetuated) phase, the PHD proteins are lost from the nucleation region and silencing is likely maintained by the read-write feedbacks associated with H3K27me3. A combination of noncoding SNPs in the nucleation region mediates instability in this long-term silencing phase with the result that Lov-1 FLC frequently digitally reactivates in individual cells, with a probability that diminishes with increasing cold duration. We propose that this decrease in reactivation probability is due to reduced DNA replication after flowering. Overall, this work defines an additional phase in the Polycomb mechanism instrumental in natural variation of silencing, and provides avenues to dissect broader evolutionary changes at FLC.
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spelling pubmed-70504812020-03-16 Noncoding SNPs influence a distinct phase of Polycomb silencing to destabilize long-term epigenetic memory at Arabidopsis FLC Qüesta, Julia I. Antoniou-Kourounioti, Rea L. Rosa, Stefanie Li, Peijin Duncan, Susan Whittaker, Charles Howard, Martin Dean, Caroline Genes Dev Research Paper In Arabidopsis thaliana, the cold-induced epigenetic regulation of FLOWERING LOCUS C (FLC) involves distinct phases of Polycomb repressive complex 2 (PRC2) silencing. During cold, a PHD–PRC2 complex metastably and digitally nucleates H3K27me3 within FLC. On return to warm, PHD–PRC2 spreads across the locus delivering H3K27me3 to maintain long-term silencing. Here, we studied natural variation in this process in Arabidopsis accessions, exploring Lov-1, which shows FLC reactivation on return to warm, a feature characteristic of FLC in perennial Brassicaceae. This analysis identifies an additional phase in this Polycomb silencing mechanism downstream from H3K27me3 spreading. In this long-term silencing (perpetuated) phase, the PHD proteins are lost from the nucleation region and silencing is likely maintained by the read-write feedbacks associated with H3K27me3. A combination of noncoding SNPs in the nucleation region mediates instability in this long-term silencing phase with the result that Lov-1 FLC frequently digitally reactivates in individual cells, with a probability that diminishes with increasing cold duration. We propose that this decrease in reactivation probability is due to reduced DNA replication after flowering. Overall, this work defines an additional phase in the Polycomb mechanism instrumental in natural variation of silencing, and provides avenues to dissect broader evolutionary changes at FLC. Cold Spring Harbor Laboratory Press 2020-03-01 /pmc/articles/PMC7050481/ /pubmed/32001513 http://dx.doi.org/10.1101/gad.333245.119 Text en © 2020 Qüesta et al.; Published by Cold Spring Harbor Laboratory Press http://creativecommons.org/licenses/by-nc/4.0/ This article, published in Genes & Development, is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.
spellingShingle Research Paper
Qüesta, Julia I.
Antoniou-Kourounioti, Rea L.
Rosa, Stefanie
Li, Peijin
Duncan, Susan
Whittaker, Charles
Howard, Martin
Dean, Caroline
Noncoding SNPs influence a distinct phase of Polycomb silencing to destabilize long-term epigenetic memory at Arabidopsis FLC
title Noncoding SNPs influence a distinct phase of Polycomb silencing to destabilize long-term epigenetic memory at Arabidopsis FLC
title_full Noncoding SNPs influence a distinct phase of Polycomb silencing to destabilize long-term epigenetic memory at Arabidopsis FLC
title_fullStr Noncoding SNPs influence a distinct phase of Polycomb silencing to destabilize long-term epigenetic memory at Arabidopsis FLC
title_full_unstemmed Noncoding SNPs influence a distinct phase of Polycomb silencing to destabilize long-term epigenetic memory at Arabidopsis FLC
title_short Noncoding SNPs influence a distinct phase of Polycomb silencing to destabilize long-term epigenetic memory at Arabidopsis FLC
title_sort noncoding snps influence a distinct phase of polycomb silencing to destabilize long-term epigenetic memory at arabidopsis flc
topic Research Paper
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7050481/
https://www.ncbi.nlm.nih.gov/pubmed/32001513
http://dx.doi.org/10.1101/gad.333245.119
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