PDS5A restricts SYN4-dependent long-range chromatin contacts to shape TAD-like chromatin architecture in Arabidopsis
Abstract
Three-dimensional genome folding in vertebrates, such as the formation of topologically associating domains (TADs), depends on cohesin-mediated loop extrusion, yet its regulation in plants remains unresolved. Using Hi–C and Micro-C, we show that Arabidopsis cohesin regulator PDS5A is a key modulator of chromatin loop extrusion and TAD-like architecture. The TAD-like domain patterns in pds5a are highly similar across tissues and ploidy levels. Genetic evidence reveals that TAD-like domains require the plant kleisin SYN4 and are opposed by WAPL1/2, with PDS5A serving as the major cohesin-unloading factor. Biochemical assays show that PDS5A associates with cohesin independently of its Tudor domain-mediated H3K4me1 binding. Micro-C further identifies accessible, highly transcribed promoters as chromatin loop and stripe anchors. Finally, mutational disruption of distal chromatin anchors shows that newly formed chromatin contacts in pds5a can act as cis-regulatory modules that influence target gene expression. Together, these findings identify a PDS5A-regulated chromatin extrusion module that contributes to plant 3D genome organization and uncover a promoter-based logic for loop anchoring and transcriptional control in plants.
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BibTeX
@article{tzourtzou2026pds5a,
title = {{PDS5A restricts SYN4-dependent long-range chromatin contacts to shape TAD-like chromatin architecture in Arabidopsis}},
author = {Sofia Tzourtzou and Zhidan Wang and Sarah Leuchtenberg and Priyanka Kumari and David Latrasse and Moussa Benhamed and Chang Liu},
journal = {The Plant Cell},
year = {2026},
month = oct,
doi = {10.1093/plcell/koag325},
url = {https://doi.org/10.1093/plcell/koag325},
note = {CC BY 4.0},
}
RIS
TY - JOUR
TI - PDS5A restricts SYN4-dependent long-range chromatin contacts to shape TAD-like chromatin architecture in Arabidopsis
AU - Sofia Tzourtzou
AU - Zhidan Wang
AU - Sarah Leuchtenberg
AU - Priyanka Kumari
AU - David Latrasse
AU - Moussa Benhamed
AU - Chang Liu
PY - 2026
DA - 2026/10/27
JO - The Plant Cell
DO - 10.1093/plcell/koag325
UR - https://doi.org/10.1093/plcell/koag325
AB - Three-dimensional genome folding in vertebrates, such as the formation of topologically associating domains (TADs), depends on cohesin-mediated loop extrusion, yet its regulation in plants remains unresolved. Using Hi–C and Micro-C, we show that Arabidopsis cohesin regulator PDS5A is a key modulator of chromatin loop extrusion and TAD-like architecture. The TAD-like domain patterns in pds5a are highly similar across tissues and ploidy levels. Genetic evidence reveals that TAD-like domains require the plant kleisin SYN4 and are opposed by WAPL1/2, with PDS5A serving as the major cohesin-unloading factor. Biochemical assays show that PDS5A associates with cohesin independently of its Tudor domain-mediated H3K4me1 binding. Micro-C further identifies accessible, highly transcribed promoters as chromatin loop and stripe anchors. Finally, mutational disruption of distal chromatin anchors shows that newly formed chromatin contacts in pds5a can act as cis-regulatory modules that influence target gene expression. Together, these findings identify a PDS5A-regulated chromatin extrusion module that contributes to plant 3D genome organization and uncover a promoter-based logic for loop anchoring and transcriptional control in plants.
SN - 1040-4651
SN - 1532-298X
ER -