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PXD005401

PXD005401 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleSWATH-MS quantitative analysis of proteins in the rice inferior and superior spikelets during grain filling
DescriptionModern rice cultivars have large panicle, however, yield potential of these cultivars is often not fully achieved due to the poor grain-filling of their late-flowering inferior spikelets (IS). Our earlier work suggests broad transcriptional reprogramming during grain filling and shows a difference in gene expression between IS and the earlier-flowering superior spikelets (SS). However, the links between the abundance of transcripts and their corresponding proteins are unclear. In this study, a SWATH-MS (sequential window acquisition of all theoretical spectra-mass spectrometry) -based quantitative proteomic analysis has been applied between SS and IS. A total of 304 proteins, ranging from cellular components to biological processes, were observed to be differentially expressed between IS and SS. Detailed gene ontology analysis indicated that several biological processes including photosynthesis, protein metabolism, and energy metabolism are differentially regulated. Further correlation analysis revealed that abundance of most of the differentially expressed proteins is not correlated to the transcript levels, indicating an extra layer of gene regulation which may exist during rice grain filling. These findings raise an intriguing possibility that these candidate proteins may be crucial in determining the poor grain-filling of IS. Therefore, we hypothesize that the regulation of proteome changes not only occurs at the transcriptional, but also at the post-transcriptional level, during grain filling in rice.
HostingRepositoryPRIDE
AnnounceDate2024-10-22
AnnouncementXMLSubmission_2024-10-22_04:34:24.486.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterFuyuan Zhu
SpeciesList scientific name: Oryza sativa (Rice); NCBI TaxID: 4530;
ModificationListNo PTMs are included in the dataset
InstrumentTripleTOF 5600
Dataset History
RevisionDatetimeStatusChangeLog Entry
02016-11-21 03:52:52ID requested
12017-07-03 01:28:44announced
22024-10-22 04:34:32announced2024-10-22: Updated project metadata.
Publication List
Zhu FY, Chen MX, Su YW, Xu X, Ye NH, Cao YY, Lin S, Liu TY, Li HX, Wang GQ, Jin Y, Gu YH, Chan WL, Lo C, Peng X, Zhu G, Zhang J, SWATH-MS Quantitative Analysis of Proteins in the Rice Inferior and Superior Spikelets during Grain Filling. Front Plant Sci, 7():1926(2016) [pubmed]
10.3389/fpls.2016.01926;
Keyword List
curator keyword: Biological
submitter keyword: proteomics,SWATH-MS analysis, grain filling, rice., post-transcriptional regulation
Contact List
Zhang Jianhua
contact affiliationThe Chinese University of Hong Kong
contact emailjhzhang@cuhk.edu.hk
lab head
Fuyuan Zhu
contact affiliationThe university of HongKong
contact email376392305@qq.com
dataset submitter
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