Dataset Information

Proteomic Analysis to Reveal the Role of Phosphoproteins in Rice Nucleus during Early Stage of Germination

ABSTRACT: Nucleus as the important subcellular organ of plant cell is responsible for storing most genetic information and controlling the plant's activities. Seed germination is an important stage for plant growth. To understand the role of nuclear protein and its phosphorylation during rice seed germination, gel free/label free proteomic technique was used

INSTRUMENT(S): LTQ Orbitrap

ORGANISM(S): Oryza Sativa (rice)

TISSUE(S): Plant Cell, Embryo

SUBMITTER: xiaojian Yin

LAB HEAD: Professor Setsuko Komatsu

PROVIDER: PXD001774 | Pride | 2016-03-17

REPOSITORIES: Pride

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Proteomic Analysis of Phosphoproteins in the Rice Nucleus During the Early Stage of Seed Germination.

Li Ming M Yin Xiaojian X Sakata Katsumi K Yang Pingfang P Komatsu Setsuko S

Journal of proteome research 20150611 7

The early stage of seed germination is the first step in the plant life cycle without visible morphological change. To investigate the mechanism controlling the early stage of rice seed germination, we performed gel-and label-free nuclear phosphoproteomics. A total of 3467 phosphopeptides belonging to 102 nuclear phosphoproteins from rice embryos were identified. Protein-synthesis-related proteins were mainly phosphorylated. During the first 24 h following imbibition, 115 nuclear phosphoproteins ...[more]

PMID: 26035336

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Project description:Bacterial blight, caused by Xanthomonas oryzae pv. oryzae (Xoo), is the most destructive bacterial disease of rice. The cloned rice gene Xa21 confers resistance to a broad spectrum of Xoo races. To identify other genes involved in Xa21-mediated immunity, a whole-genome oligonucleotide microarray of rice was used to profile the expression of rice genes between incompatible interactions and mock treatments at 0, 4, 8, 24, 72 and 120 hours post inoculation (hpi) or between incompatible and compatible interactions at 4 hpi, respectively. A total of 441 differentially expressed genes, designated as XDGs (Xa21 mediated Differentially expressed Genes), were identified. Based on their functional annotations, the XDGs were assigned to 14 categories some of which encode resistance/defense related proteins and signaling regulators. Interestingly, most signaling-related genes were down-regulated at 4 and 8 hpi, suggesting that negative regulation of cellular signaling may play a role in the Xa21-mediated defense response. Moreover, a number of pathogenesis-related genes were induced at 72 and 120 hpi. Comparison of expression profiles mediated by other resistance genes revealed an interesting common responses in the plant immune system. Comparison analyses also suggest possible overlaps with hormone signaling pathways and with defense systems including basal defense and hypersensitive responses. We investigated the transcriptional characteristics of Xa21-mediated defense responses in rice using whole-genome oligonucleotide microarray, by comparing the expression profiles between incompatible interactions and mock treatments at five time-points and between incompatible and compatible interactions at 4 hours post inoculation. Microarray hybridization at each time point was carried out in three replications including two biological replications and one technological replication. To detect the genes that are significantly regulated and to eliminate those that have inconsistent expression data among replicated experiments, a cutoff of 1.5 fold change and 1.96 for intensity-dependent Z-scores were required in at least two experimental samples.

			Action	DRS
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	0HNP1timecourse.msf	Msf
	0HNP1timecourse.pep.xml	Pepxml
	0HNP1timecourse.raw	Raw
	0HNP2timecourse.mgf	Mgf