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PXD002537

PXD002537 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleA quantitative proteomic analysis of in vitro assembled chromatin
DescriptionThe structure of chromatin is critical for many aspects of cellular physiology and is considered to be the primary medium to store epigenetic information. It is defined by the histone molecules that constitute the nucleosome, the positioning of the nucleosomes along the DNA and the non-histone proteins that associate with it. These factors help to establish and maintain a largely DNA sequence-independent but surprisingly stable structure. Chromatin is extensively disassembled and reassembled during DNA replication, repair, recombination or transcription in order to allow the necessary factors to gain access to their substrate. Despite such constant interference with chromatin structure, the epigenetic information is generally well maintained. Surprisingly, the mechanisms that coordinate chromatin assembly and ensure proper assembly are not particularly well understood. Here, we use SWATH-MS to describe the kinetics of in vitro assembled chromatin supported by an embryo extract prepared from preblastoderm Drosophila melanogaster embryos. This system allows easy manipulation of distinct aspects of chromatin assembly such as post-translational histone modifications, the levels of histone chaperones and the concentration of distinct DNA binding factors. Our findings support the idea that chromatin assembly factors and factors important for chromatin structure bind chromatin in an ordered manner, which is -at least in part- regulated by histone deacetylation. We are able to identify functional clusters of proteins based on their different binding kinetics. Whereas many proteins bind exclusively during the onset of chromatin assembly, a few proteins show a clear tendency towards matured chromatin.
HostingRepositoryPRIDE
AnnounceDate2016-01-27
AnnouncementXMLSubmission_2016-01-27_07:24:18.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterAndreas Schmidt
SpeciesList scientific name: Drosophila melanogaster (Fruit fly); NCBI TaxID: 7227;
ModificationListacetylated residue; iodoacetamide derivatized residue
InstrumentTripleTOF 6600; LTQ Orbitrap
Dataset History
RevisionDatetimeStatusChangeLog Entry
02015-07-14 01:29:56ID requested
12016-01-27 07:24:19announced
Publication List
V, ö, lker-Albert MC, Pusch MC, Fedisch A, Schilcher P, Schmidt A, Imhof A, A Quantitative Proteomic Analysis of In Vitro Assembled Chromatin. Mol Cell Proteomics, 15(3):945-59(2016) [pubmed]
Keyword List
curator keyword: Biological
submitter keyword: Acetylation
Affinity proteomics
Chromatin function or biology
Label-free quantification
Macromolecular Assemblages
Contact List
Axel Imhof
contact affiliationProf. Dr. Axel Imhof Histone Modifications Group Zentrallabor für Proteinanalytik BioMedical Center Ludwig-Maximilians-University of Munich Großhdernerstr. 9 82152 Planegg-Martinsried Tel.: --49 89 2180 75420 Fax.: --49 89 2180 75440 e-mail: imhof@lmu.de
contact emailimhof@lmu.de
lab head
Andreas Schmidt
contact affiliationAdolf-Butenandt-Institut
contact emailA.Schmidt@med.uni-muenchen.de
dataset submitter
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