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29RNP kinase - Identification and characterization of chloroplast casein kinase II from Oryza sativa (rice)

ABSTRACT: We firstly identified a chloroplast casein kinase 2 from rice heparin sepharose enrichmen which could phosphorylate the RNP29. Then we identified the phosphorylation site of RNP29. We also performed the phosophoproteome analysis of rice and compared the phosphorylation site between rice and arabidopsis.

INSTRUMENT(S): LTQ Orbitrap

ORGANISM(S): Oryza Sativa (rice)

TISSUE(S): Plant Cell, Leaf

SUBMITTER: Qingtao Lu

LAB HEAD: Lu Qingtao

PROVIDER: PXD001168 | Pride | 2015-04-27

REPOSITORIES: Pride

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Dataset's files

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			Action	DRS
	20070625_03_Ti1.RAW	Raw
	20070625_03_Ti1.mgf	Mgf
	20070625_04_Ti2.RAW	Raw
	20070625_04_Ti2.mgf	Mgf
	20070625_05_Ti3.RAW	Raw

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Publications

Identification and characterization of chloroplast casein kinase II from Oryza sativa (rice).

Lu Qingtao Q Ding Shunhua S Reiland Sonja S Rödiger Anja A Roschitzki Bernd B Xue Peng P Gruissem Wilhelm W Lu Congming C Baginsky Sacha S

Journal of experimental botany 20141014 1

Plastid casein kinase II is an important regulator of transcription, posttranscriptional processes, and, most likely, different metabolic functions in dicotyledonous species. Here we report the identification and characterization of pCKII from the monocotyledonous species Oryza sativa. OspCKII activity was enriched from isolated rice chloroplasts using heparin-Sepharose chromatography, in which it co-elutes with the transcriptionally active chromosome (TAC) and several ribosomal proteins. Inclus ...[more]

PMID: 25316064

Similar Datasets

29RNP kinase idetification - Identification and characterization of chloroplast casein kinase II from Oryza sativa (rice)

Project description:The 29-kDa RNA protein (29RNP), which was originally identified in rice etioplasts, has increased phosphorylation levels during de-etiolation. Here, using heparin-sepharose enriched fractions, we identified a chloroplast kinase that phosphorylated 29RNP. The chloroplast kinase phosphorylated the 29RNP and exhibited CKII biochemical characteristics in a kinase reaction test. Proteomic analysis of the chloroplast heparin-sepharose enriched fractions revealed the presence of 70 proteins, including both abundant proteins, such as plastid encoded polymerase subunits, and low-abundance proteins, such as APO2 and DAG. An inclusion list method using Fourier transform ion cyclotron resonance mass spectrometer ( FT-ICR LTQ MS ) was subsequently used to analyze the chloroplast heparin-sepharose enriched fractions. The 29RNP kinase was positively identified as a CKII alpha family protein by the presence of two unique peptides.

2015-04-27 | PXD000951 | Pride

29RNP phosphorylation site - Identification and characterization of chloroplast casein kinase II from Oryza sativa (rice)

Project description:Identfication 29RNP phosphorylation site by rice chloroplast CK2 alpha.

2015-04-27 | PXD000857 | Pride

OsRALF17/19 activates ROS signaling through OsMTD2 to modulate pollen tube growth in Oryza sativa

Project description:- Pollen tube growth is important process for successful double fertilization, which is critical for grain yield in crop plants. Despite much progress in identification of rapid alkalization factors (RALFs) which serve as ligand for signaling transduction during fertilization in Arabidopsis, there is no functional study of RALF in mono-cotyledon plant. - We functionally characterized two pollen specific RALF in rice (Oryza sativa) using multiple CRISPR/Cas9 induced loss-of-function mutants, peptide treatment, expression analyses, tag reporter lines. - OsRALF17 is specifically expressed in pollen and pollen tube as the strongest level among 41 RALF members in rice. Exogenously applied OsRALF17 inhibits pollen tube germination and elongation at high concentration, but enhances tube elongation at low concentration, indicating the regulation of growth balance. Double mutant of OsRALF17 with OsRALF19 exhibit almost male sterile, with defect on pollen germination and tube elongation. - Our study revealed that functionally-redundant OsRALF17 and 19 peptides binds to the OsMTD2, CrRLK1L family member, and transmits ROS signal for pollen tube germination and integrity maintenance in rice. We provide new insights into the role of RALF and expanding our understanding of the biological role of RALF in regulating rice fertilization.

2023-09-21 | PXD037597 | Pride

Acetylome analyses in the germinating rice seed

Project description:Seed germination is a complicated physiological process, during which structures of mitochondria and plastids are recovered, and metabolisms are re-activated (Han and Yang, 2015). It has been shown that metabolism reactivation is very important for rice germination (He et al., 2011b;Han et al., 2014a). It is still unknown if protein acetylation involved in and regulate these metabolisms during rice seed germination. To answer this question, we globally profiled the acetylome in rice embryos from the germinating seeds. A number of acetylated enzymes were identified. The results provide more information about the metabolism regulation in germinating seeds.

2016-01-26 | PXD002739 | Pride

Proteomic changes in Oryza sativa leaves in response to MSP1 and flg22 treatments

Project description:Rice blast disease caused by Magnaporthe oryzae is one of the most damaging diseases affecting rice productivity. Previously, we reported a novel M. oryzae- secreted protein MSP1, which triggers cell death and pathogen-associated molecular pattern (PAMP)-triggered immune (PTI) responses in rice. To investigate the MSP1 induced defense response in rice at the protein level, we employed a label-free quantitative proteomic approach, in parallel with the flg22, which is a wellknown elicitor. Proteomics analysis using the MaxQuant-Perseus platform led to the identification of 4087 proteins of which 417 showed significant differences (multiple sample test, ANOVA p<0.05) in response to MSP1 and/or flg22 treatments. Functional annotation of the differential proteins showed that proteins related to the primary metabolism, secondary metabolism and lipid metabolism were strongly down-regulated, while elevated proteins were mainly associated with the stress response, chromatin remodeling, post-translational modification of proteins and signaling.

2018-07-06 | PXD008069 | Pride

Time-resolved combined analysis of transcriptome and proteome of the pathogenicity-activated plant pathogen Xanthomonas oryzae pv. oryzae

Project description:Xanthomonas oryzae pv. oryzae (Xoo) is a rice pathogen causing bacterial blight, which outbreaks in most rice cultivating countries and reduces yield up to 50% due to no effective pesticide. Urgent responses of Xoo upon the initial contacts with rice at infection site are essential for pathogenesis. We studied the time-resolved gene expression of both transcriptome and proteome in the pathogenicity-activated Xoo cells with an in vitro assay system. Genes related to cell mobility, inorganic ion transport and effectors are early response genes to help Xoo cells invade into damaged rice leaf tissues, obtain rare cofactors, and evade rice immune responses. Although the time-resolved gene expression pattern of Xoo is conserved in both mRNA and protein, there are varied time gaps in genes between the expression peaks of mRNA and protein, which implies there is an additional translational selection step of specific mRNAs for rapid translation. The expression pattern of genes from a polycistronic mRNA in the same gene cluster is strictly conserved. The time-resolved gene expression study of Xoo in both transcriptome and proteome provides a valuable information about the pathogenic responses of Xoo at the initial stage of Xoo-rice interaction.

2021-09-09 | PXD020135 | Pride

Transcriptomes of Rice internode before and after heading

Project description:To identify genes that co-express with rice cellulose synthase genes involved in rice secondary cell wall formation, transcriptome analyses was performed using rice internodesbefore and after the heading stage, where secondary cell wall formation extensively occur. Transcriptomes of rice third or the fourth internodes were analyzed at 17, 8, and 1 day before, and 6, 13, and 35 days after heading Please note that the current data were normalized together with additional 143 sample data available in GEO and the list of the sample accessions is provided in Series supplementary file [normalized_together_GSMs.txt].

2013-10-01 | E-GEOD-51289 | biostudies-arrayexpress

Next Generation Sequencing Facilitates Small RNA Mediated Rice Resistance to Xoo

Project description:Purpose: The goal of this study is to identify small non-conding RNAs which are involved in rice resistance to Xoo. Methods: Rice leaves were inoculated with the Xoo strain PXO61 at the four-leaf to five-leaf stage by the leaf-clipping method. Control rice plants were inoculated with water (mock inoculation). And then, total RNA was extracted to be sequenced using Illumina GAIIx. Results: Using an optimized data analysis workflow to count the expression level of small ncRNA, we found several differentially expressed small ncRNA which may be participated in the interaction between rice and Xoo. Conclusions: Small ncRNA have be found to function in a variety of biological processes. Our study here has showed that several candidate miRNA or siRNA may play a significant role in rice immunity. Plants were inoculated with the Xoo strain PXO61 at the four-leaf to five-leaf stage by the leaf-clipping method. Control rice plants were inoculated with water (mock inoculation). Samples were collected before inoculation (ck) and at 2, 4, and 24 hours after PXO61 or mock inoculation from Rb49 and MDJ8. Leaf fragments approximately 2 cm in length that were immediately next to the inoculation site were collected.

2016-02-25 | E-GEOD-69242 | biostudies-arrayexpress

Tandem mass tags (TMT)–based quantitative proteomics approach quantified in 2-hydroxyisobutyrylation site of rice spikelets and Ustilaginoidea virens by mass spectrometry.

Project description:Rice false smut, caused by the pathogenic ascomycete fungus Ustilaginoidea virens (teleomorph: Villosiclava virens), is one of the most devastating grain diseases in the majority of rice-growing areas of the world. Lysine 2-hydroxyisobutyrylation (Khib) is a novel post-translational modification (PTM), which plays an important role in active gene transcription and cellular proliferation in eukaryotes. However, its function remains unknown in phytopathogens and plant. Here, we report a comprehensive identification of Khib in rice false smut fungus Ustilaginoidea virens and rice. By using a tandem mass tags (TMT)–based quantitative proteomics approach, 2-hydroxyisobutyrylation sites were identified in U. virens and rice.

2023-06-06 | PXD019114 | Pride

Comparison of gene expression in rice leaves inoculated with a virulent strain of Xanthomonas oryzae and its mutant deficient in typeIII secretion system.

Project description:Gene expression profiles in rice leaves near the inoculated site of Xanthomonas oryzae and its typeIII secretion mutant were examined. Rice plants (cv Nippnbare, 42 days old) were clip-inoculated with a virulent strain of Xanthomonas oryzae and its △hrcV mutant. At each time points, leaf segments were excised below the clipped site (3 to 5 mm in length) and gene expression profiles were analyzed by microarray.

2015-04-01 | E-GEOD-63047 | biostudies-arrayexpress

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