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PXD002379

PXD002379 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleLC-MS/MS proteomic profiling of maize opaque endosperm mutants
DescriptionReduced prolamin (zein) accumulation and defective ER-body formation occurs in maize opaque endosperm mutants opaque2 (o2), floury2 (fl2), defective endosperm*B30 (DeB30), and mucronate (Mc) whereas other opaque mutants such as opaque1 (o1) and floury1 (fl1) are normal in these regards. This suggests that other factors contribute to kernel texture. We used a LC-MS/MS proteomics approach to compare non-zein proteins of nearly isogenic opaque mutants. In total, 2762 proteins were identified that were enriched for biological processes such as protein transport and folding, amino acid biosynthesis, and proteolysis. Amino acid analysis of top proteins revealed qualitative changes in lysine abundance contributing to the overall lysine increase. Principal component analysis and pathway enrichment suggested that the mutants partition into three groups: Mc, DeB30, fl2 and o2; o1; and fl1. Indicator species analysis revealed mutant-specific proteins, and highlighted ER secretory pathway components that are enriched in selected groups of mutants, albeit with no common proteins across all mutants. Most significantly changed proteins were related to stress or defense and zein partitioning into the soluble fraction for Mc, DeB30, o1 and fl1 specifically. We suggest that ER stress is a universal trigger of opacity regardless of qualitative or quantitative changes in zein accumulation.
HostingRepositoryPRIDE
AnnounceDate2016-01-05
AnnouncementXMLSubmission_2016-01-05_14:44:56.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterShangang Jia
SpeciesList scientific name: Zea mays (Maize); NCBI TaxID: 4577;
ModificationListNo PTMs are included in the dataset
InstrumentQ Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02015-06-17 01:32:16ID requested
12016-01-05 14:44:57announced
Publication List
Morton KJ, Jia S, Zhang C, Holding DR, Proteomic profiling of maize opaque endosperm mutants reveals selective accumulation of lysine-enriched proteins. J Exp Bot, 67(5):1381-96(2016) [pubmed]
Keyword List
curator keyword: Biological
submitter keyword: opaque, endosperm, maize, non-zein, proteome, ER stress, UPR, proteomics, LC-MS/MS
Contact List
David R. Holding
contact affiliationDepartment of Agronomy and Horticulture, Center for Plant Science Innovation, Beadle Center for Biotechnology, University of Nebraska, Lincoln, NE
contact emaildholding2@unl.edu
lab head
Shangang Jia
contact affiliationUniversity of Nebraska-Lincoln
contact emailshangang.jia@gmail.com
dataset submitter
Full Dataset Link List
Dataset FTP location
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