PXD065507

PXD065507 is an original dataset announced via ProteomeXchange.

Title	The LUMINIDEPENDENS protein is a general repressor of transcription in Arabidopsis
Description	Genomic integrity is constantly challenged by transcription/replication conflicts (TRCs), a major source of replication stress (RS) and instability across all life forms. While extensive studies have uncovered TRC resolution mechanisms in animals, yeast, and prokaryotes, their counterparts in plants remain largely unexplored. Through a forward genetic screen, we identified the LUMINIDEPENDENS (LD) protein, previously known for regulating the flowering repressor FLC, as a key player in mitigating RS in plants. Strikingly, transcriptomic analyses reveal that loss of LD results in the upregulation of over 13,000 genes, establishing LD as a global transcriptional repressor. Consistent with this role, LD binds a substantial portion of the Arabidopsis genome, and interacts with the MED18 subunit of the Mediator complex to modulate RNA polymerase II phosphorylation. These findings uncover a fundamental function of LD in fine-tuning transcription genome-wide, with an additional role in suppressing TRCs by locally dampening transcription and promoting replication fork progression. Our work highlights a previously unrecognized genome-protective strategy in plants, opening new avenues for understanding TRC management in eukaryotic systems.
HostingRepository	PRIDE
AnnounceDate	2025-11-17
AnnouncementXML	Submission_2025-11-17_00:37:49.732.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD065507
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Dominique Eeckhout
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: NEWT:3702;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2025-06-26 05:11:20	ID requested
⏵ 1	2025-11-17 00:37:50	announced

10.6019/PXD065507;

submitter keyword: LUMINIDEPENDENS, AP-MS,Arabidopsis

Geert De Jaeger
contact affiliation	Ghent University, Department of Plant Biotechnology and Bioinformatics, Technologiepark 71, 9052 Ghent, Belgium VIB Center for Plant Systems Biology, Technologiepark 71, 9052 Ghent, Belgium
contact email	geert.dejaeger@psb.vib-ugent.be
lab head
Dominique Eeckhout
contact affiliation	Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, B-9052, Belgium VIB Center for Plant Systems Biology, Ghent, B-9052, Belgium
contact email	dominique.eeckhout@psb.ugent.be
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD065507
     1. Label: PRIDE project
     2. Name: The LUMINIDEPENDENS protein is a general repressor of transcription in Arabidopsis