<scp>BAF</scp> 60/ <scp>SWP</scp> 73 subunits define subclasses of <scp>SWI</scp> / <scp>SNF</scp> chromatin remodelling complexes in Arabidopsis
Evolutionarily conserved switch-defective/sucrose nonfermentable (SWI/SNF) ATP-dependent chromatin remodelling complexes (CRCs) alter nucleosome positioning and chromatin states, affecting gene expression to regulate important processes such as proper development and hormonal signalling pathways. We employed transcript profiling, chromatin immunoprecipitation (ChIP), mass spectrometry, yeast two-hybrid and bimolecular fluorescence complementation protein-protein interaction studies, along with hormone and metabolite profiling and phenotype assessments, to distinguish the SWP73A and SWP73B subunit functions in Arabidopsis. We identified a novel subclass of SWI/SNF CRCs defined by the presence of the SWP73A subunit. Therefore, we propose a refined classification of SWI/SNF CRCs in Arabidopsis, introducing BRM-associated SWI/SNF (BAS)-A (containing SWP73A) and BAS-B (containing SWP73B) subclasses. The SWP73A- and SWP73B-carrying SWI/SNF CRCs exhibit differential properties, demonstrated by distinct chromatin binding patterns and divergent effects on hormone biosynthesis and metabolism. We additionally found that SWP73A plays a specific role in the regulation of auxin signalling, root development, metabolism and germination that cannot be fully compensated by SWP73B. We recognised that some atypical subclasses of SWI/SNF CRCs may be likely formed in mutant lines with inactivated SWP73 subunits. Our study reveals that the duplication of the SWP73 subunit genes contributes to unique and shared functions of SWI/SNF CRC subclasses in the regulation of various processes in Arabidopsis.
Authors
- Saleh Alseekh (ORCID: https://orcid.org/0000-0003-2067-5235)
- Patrick Giavalisco (ORCID: https://orcid.org/0000-0002-4636-1827)
- Anna T. Rolicka (ORCID: https://orcid.org/0000-0001-9589-0197)
- Sara Christina Stolze (ORCID: https://orcid.org/0000-0002-1421-9703)
- Dominika M. Gratkowska-Zmuda
- Ernest Bucior (ORCID: https://orcid.org/0000-0003-0160-7210)
- Pawel Cwiek (ORCID: https://orcid.org/0000-0002-9492-1745)
- Szymon Kubala (ORCID: https://orcid.org/0000-0002-3094-2184)
- Hirofumi Nakagami (ORCID: https://orcid.org/0000-0003-2569-7062)
- Jarosław Steciuk (ORCID: https://orcid.org/0000-0003-1378-4214)
- Elżbieta Grzesiuk (ORCID: https://orcid.org/0000-0002-7833-7602)
- Rainer Franzen
- Mohammad‐Reza Hajirezaei (ORCID: https://orcid.org/0000-0002-9537-0121)
- Csaba Koncz (ORCID: https://orcid.org/0000-0003-4422-9993)
- Paulina Oksinska (ORCID: https://orcid.org/0000-0001-9506-1567)
- Dorota Ł. Zugaj
- Anne Harzen (ORCID: https://orcid.org/0000-0001-7370-4939)
- Sebastian Sacharowski (ORCID: https://orcid.org/0000-0001-8220-9649)
- Monika Ciesla
- Tomasz J. Sarnowski (ORCID: https://orcid.org/0000-0002-3805-2039)
- Alisdair Robert Fernie (ORCID: https://orcid.org/0000-0001-9000-335X)
- Bruno Hüettel (ORCID: https://orcid.org/0000-0001-7165-1714)
- Takayuki Tohge (ORCID: https://orcid.org/0000-0001-5555-5650)
- Klaudia Nowicka (ORCID: https://orcid.org/0000-0002-4004-1937)
Institutions
- Center of Plant Systems Biology and Biotechnology (BG)
- Max Planck Institute of Molecular Plant Physiology (DE)
- Leibniz-Institut für Pflanzengenetik und Kulturpflanzenforschung (IPK) (DE)
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences (PL)
- Max Planck Institute for Plant Breeding Research (DE)
Publication Details
- Journal
- New Phytologist
- Published
- 2025-05-22
- DOI
- https://doi.org/10.1111/nph.70182
- Citations
- 1
- Primary Topic
- Plant Molecular Biology Research
- Type
- article
- Field-Weighted Citation Impact
- 1.75
Funders
- European Commission
- Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung
- Narodowe Centrum Nauki
- Horizon 2020 Framework Programme
- European Regional Development Fund