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PXD035892-1

PXD035892 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleThe TRIPLE PHD FINGERS proteins are required for SWI/SNF complex-mediated +1 nucleosome positioning and transcription start site usage in Arabidopsis
DescriptionEukaryotes have evolved multiple ATP-dependent chromatin remodelers to shape the nucleosome landscape. We recently uncovered an evolutionarily conserved SWItch/Sucrose Non-Fermentable (SWI/SNF) chromatin remodeler complex in plants reminiscent of the mammalian BAF subclass, which specifically incorporates the MINUSCULE (MINU) catalytic subunits and the TRIPLE PHD FINGERS (TPF) signature subunits. Here we report experimental evidence that establishes the functional relevance of TPF proteins for the complex activity. Our results show that depletion of TPF triggers similar pleiotropic phenotypes and molecular defects to those found in minu mutants. Moreover, we report the genomic location of MINU2 and TPF proteins as representative members of the plant BAF-like complex and their impact on nucleosome positioning and transcription. These analyses unravel the binding of the complex to thousands of expressed genes where it modulates the position of the +1 nucleosome. These targets tend to produce 5´-shifted transcripts in the tpf and minu mutants pointing to the participation of the complex in alternative transcriptional start site (TSS) usage. Interestingly, there is a remarkable correlation between +1 nucleosome shift and upstream TSS usage suggesting their functional connection. In summary, this study unravels the function of a plant SWI/SNF complex involved in +1 nucleosome positioning and alternative TSS usage.
HostingRepositoryPRIDE
AnnounceDate2022-09-20
AnnouncementXMLSubmission_2022-09-19_19:06:04.793.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterYasaman Jami-Alahmadi
SpeciesList scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationListNo PTMs are included in the dataset
InstrumentOrbitrap Fusion Lumos
Dataset History
RevisionDatetimeStatusChangeLog Entry
02022-08-08 10:18:05ID requested
12022-09-19 19:06:05announced
Publication List
Dataset with its publication pending
Keyword List
submitter keyword: Arabidopsis, SWI/SNF complex, proteomics
Contact List
Javier Gallego Bartolom
contact affiliationRamón y Cajal Fellow IBMCP (UPV/CSIC) Valencia, Spain
contact emailjagalbar@gmail.com
lab head
Yasaman Jami-Alahmadi
contact affiliationUCLA
contact emailyjami@ucla.edu
dataset submitter
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Dataset FTP location
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