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PXD022369

PXD022369 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleDNA damage-induced chromatome analysis in yeast reveals recruitment of Ubiquitin ligases for efficient DNA repairtest1
DescriptionEukaryotic cells package their genomes around histone octamers. In response to DNA damage checkpoint kinase-induced core histone degradation leads to a 20-40% reduction in nucleosome density in yeast. To gain insights into this process we report the first comprehensive proteomic analysis of yeast chromatin and the alterations that occur in response to DNA damage. We analyzed the protein content of formaldehyde cross-linked chromatin using tandem mass tag (TMT), multiplexing and high-resolution mass spectrometry (MS), after sucrose gradient enrichment of the chromatin fraction. Quantitative damage-induced changes in the chromatin-bound proteome (called chromatome), were compared among wild-type cells and those defective for the INO80 remodeler (arp8Δ), or high mobility group box proteins (Nhp6a and Nhp6b, nhp6ΔΔ). We find massive changes in the chromatome in response to Zeocin, which are strongly attenuated in cells lacking a functional INO80 remodeler.
HostingRepositoryPRIDE
AnnounceDate2024-10-07
AnnouncementXMLSubmission_2024-10-07_13:36:50.095.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterJan Seebacher
SpeciesList scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationListTMT6plex-126 reporter+balance reagent acylated residue; ubiquitinylated lysine; N6-methyl-L-lysine; phosphorylated residue; acetylated residue; monohydroxylated residue; N6,N6,N6-trimethyl-L-lysine; N6,N6-dimethyl-L-lysine
InstrumentOrbitrap Fusion Lumos
Dataset History
RevisionDatetimeStatusChangeLog Entry
02020-11-05 01:08:31ID requested
12024-10-07 13:36:50announced
Publication List
Dataset with its publication pending
Keyword List
submitter keyword: HMGB1/NHP6, DNA dynamics, S. Cerevisiae,tesChromatome, Chromatin proteomics, INO80, Ubiquitin ligases, Proteasome, Zeocin, homologous recombination, DNA damage response, Histone degradation
Contact List
Susan Gasser
contact affiliationFriedrich Miescher Institute for Biomedical Research (FMI) Basel, Switzerland
contact emailsusan.gasser@fmi.ch
lab head
Jan Seebacher
contact affiliationFMI Basel
contact emailjan.seebacher@fmi.ch
dataset submitter
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Dataset FTP location
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