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MSCA AGILE

Stefanie
ROSA

Associate Professor

ORCID link : 0000-0002-8100-1253

Website links : Research Group and staff page Stefanie Rosa

IRP : Elucidating the role of cold-induced spatial clustering at the FLC locus during Polycomb-mediated gene silencing

Institute

Department of Plant Biology, Swedish University of Agricultural Sciences, Swedish

Research thematic

Chromatin Dynamics & Genome Integrity

Research

My group investigates how chromatin dynamics within the plant nucleus shape gene expression and preserve genome integrity. Because nuclear processes are often heterogeneous across cells, we are moving beyond population-averaged measurements toward quantitative, single-cell and single-molecule approaches. A key part of our work is therefore to develop and apply tools that improve the spatial and temporal resolution with which molecular processes can be dissected in living plants. In genome stability, we combine quantitative live-cell fluorescence imaging, single-molecule RNA labeling, and molecular genetics to uncover how chromatin mobility changes during DNA damage, identify factors that regulate these dynamics, and determine how altered mobility affects repair and long-term genome stability. In gene regulation, we examine how 3D nuclear organization complements epigenetic mechanisms to enforce stable gene silencing. Polycomb Group (PcG) proteins reshape local chromatin and promote long-range interactions that contribute to nuclear architecture, yet how these layers of regulation mechanistically reinforce each other remains unclear. We address the cause-consequence relationship between Polycomb-mediated repression and subnuclear chromatin organization, linking chromatin structure to transcriptional states.

Five Main Publications

Differences in RAD51 transcriptional response and cell cycle dynamics reveal varying sensitivity to DNA damage among Arabidopsis thaliana root cell types

Kutashev K, Meschichi A, Reeck S, Fonseca A, Sartori K, White CI, Sicard A, Rosa S* (2024). New Phytologist 243(3):966-980.

Whole-mount smFISH allows combining RNA and protein quantification at cellular and subcellular resolution

Zhao, L., Fonseca, A., Meschichi, A., Sicard A*, Rosa S* (2023) Nature Plants; doi: 10.1038/s41477-023-01442-9.

Integrating analog and digital modes of gene expression at Arabidopsis FLC

Antoniou-Kourounioti RL, Meschichi A, Reeck S, Berry S, Menon G, Zhao Y, Fozard J, Holmes T, Wang H, Hartley M, Dean C, Rosa S*, Howard M* (2023) eLife 2023;12:e79743.

The plant-specific DDR factor SOG1 increases chromatin mobility in response to DNA damage

Meschichi A, Reeck S, Sicard A, Pontvianne F, Rosa S (2022) EMBO Reports 23:e54736.

Mutually exclusive sense–antisense transcription at FLC facilitates environmentally induced gene repression.

Rosa S, Duncan S, Dean C. (2016) Nature Communications 7, 13031 doi: 10.1038/ncomms13031.

This project has received funding from the European Union’s Horizon Europe research and innovation programme under the Marie Skłodowska-Curie grant agreement No 101073476.

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