PXD004870

PXD004870 is an original dataset announced via ProteomeXchange.

Title	Oryza sativa,Global proteome,LC-MSMS
Description	Rice is one of the most important global food crops, and is also a model organism for cereal research 31 . Complete genome sequencing of rice, together with advances in transcriptomics and proteomics, has had a dramatic impact on plant growth and 5 breeding programs 32 . Genomic analysis of DNA methylation in rice has revealed methylation patterns associated with gene bodies and promoters, and the occurrence of high levels of DNA methylation in the centromeric domain 33 . A genome-wide investigation of acetylation in rice revealed that H3K9ac and H3K27ac are mainly enriched at transcription start sites associated with active transcription 34 . Furthermore, global proteome analysis has shown that phosphorylation and succinylation are involved in diverse cellular and metabolic processes 35, 36 . However, despite these considerable advances in our knowledge, additional large-scale analysis of the lysine acetylome in rice is expected to identify many more Kac sites and acetylated proteins in this improtant crop plant. In this study, affinity enrichment and high-resolution LC-MS/MS were used for large-scale analysis of the lysine acetylome in rice variety Nipponbare. In total, 1353 lysine acetylation sites were detected in 866 protein groups in rice seedlings. Proteomic analysis showed that Kac occurs in proteins involved in diverse biological processes with varied cellular functions and subcellular localization.
HostingRepository	PRIDE
AnnounceDate	2017-11-13
AnnouncementXML	Submission_2017-11-13_00:26:19.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Gong zhi yun
SpeciesList	scientific name: Rice(O. sativa); NCBI TaxID: 4530;
ModificationList	acetylated residue
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2016-08-19 01:57:20	ID requested
⏵ 1	2017-11-13 00:26:20	announced

Xue C, Liu S, Chen C, Zhu J, Yang X, Zhou Y, Guo R, Liu X, Gong Z, Global Proteome Analysis Links Lysine Acetylation to Diverse Functions in Oryza Sativa. Proteomics, 18(1):(2018) [pubmed]

curator keyword: Biological

submitter keyword: Global proteomics, lysine acetylation, acetylome, Oryza sativa, photosynthesis, Calvin cycle.

Gong zhi yun
contact affiliation	Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Key Laboratory of Plant Functional Genomics of the Ministry of Education, Yangzhou University, Yangzhou 225009,China
contact email	gong_zhiyun@126.com
lab head
Gong zhi yun
contact affiliation	Jiangsu Key Laboratory of Crop Genetics and Physiology / Co-Innovation Center for Modern Production Technology of Grain Crops, Key Laboratory of Plant Functional Genomics of the Ministry of Education, Yangzhou University, Yangzhou 225009, China
contact email	gong_zhiyun@126.com
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/11/PXD004870

PRIDE project URI

• PRIDE
  1. PXD004870
     1. Label: PRIDE project
     2. Name: Oryza sativa,Global proteome,LC-MSMS