Dataset Information

Quantitative phosphoproteomic and physiological analyses provide insights into the formation of the variegated leaf in Catalpa fargesii

ABSTRACT: To unveil the role of posttranslational modification in the variegated phenotype, we conducted global quantitative phosphoproteomic analysis on different leaf color sectors of Maiyuanjinqiu and the corresponding of Catalpa fargesii using Ti4+-IMAC phosphopeptide enrichment. 3778 phosphorylated sites assigned to 1646 phosphoproteins were identified, and 3221 in 1434 proteins were quantified. Differential phosphoproteins (above 1.5 or below 1/1.5) in various leaf color sectors were selected for functional enrichment analyses. GO enrichment revealed that processes of photosynthesis, regulation of the generation of precursor metabolites, response to stress, homeostasis, amino acid metabolism, transport–related processes and most of the energy metabolisms might contribute to leaf color. KEGG pathway enrichment analysis was performed based on differential phosphoproteins (DPs) in different organelles. The result showed that most enriched pathways were located in the chloroplasts and cytosol. The phosphorylation levels of glycometabolism enzymes might greatly affect leaf variegation.

INSTRUMENT(S): Orbitrap Fusion

ORGANISM(S): Catalpa Fargesii

TISSUE(S): Leaf

SUBMITTER: Nan Wang

LAB HEAD: Junhui Wang

PROVIDER: PXD013065 | Pride | 2019-11-12

REPOSITORIES: Pride

ACCESS DATA

Publications

Quantitative Phosphoproteomic and Physiological Analyses Provide Insights into the Formation of the Variegated Leaf in Catalpa fargesii.

Wang Nan N Zhu Tianqing T Lu Nan N Wang Zhi Z Yang Guijuan G Qu Guanzheng G Kong Lisheng L Zhang Shougong S Ma Wenjun W Wang Junhui J

International journal of molecular sciences 20190417 8

Variegated plants are valuable materials for investigating leaf color regulated mechanisms. To unveil the role of posttranslational modification in the variegated phenotype, we conducted global quantitative phosphoproteomic analysis on different leaf color sectors of Maiyuanjinqiu and the corresponding of Catalpa fargesii using Ti4+-IMAC phosphopeptide enrichment. A total of 3778 phosphorylated sites assigned to 1646 phosphoproteins were identified, and 3221 in 1434 prot ...[more]

PMID: 30999580

Similar Datasets

Project description:The endometrium contains a distinct population of immune cells consisting of 70% natural killer (NK) cells that undergo cyclic changes during the menstrual cycle. However, how these uterine NK (uNK) cells interact with uterine stromal cells (SC) remains unclear. We therefore investigated the paracrine effect of medium conditioned by uNK cells on the gene expression profile of endometrial SC in-vitro using a cDNA Microarray. Our results, verified by real-time PCR and ELISA, reveal that soluble factors from uNK cells substantially alter endometrial SC gene expression. The largest group of up-regulated genes found were chemokines and cytokines, including IL-15 and IL-15RÎ±. The latter could produce a niche for uNK cells allowing proliferation within and recruitment into the uterus, as seen in bone marrow. In addition, the most abundantly up-regulated genes, including IL-8, CCL8 and CXCL1 have also been shown to be stimulated by contact of SC with trophoblast, suggesting that uNK cells work synergistically to support the initial trophoblast migration during implantation. Overall this study demonstrates for the first time the paracrine communication between uNK cells and uterine SC, and adds to the understanding of how the uterine immune system contributes to the changes seen within the cycling endometrium. Keywords: Response of endometrial stromal cells to uNK conditioned medium This study was designed to identify the response of non-decidualised stromal cells from the endometrium, to soluble factors secreted by uterine NK cells. Endometrial stromal cells were isolated from 7 patients and treated with control medium or medium conditioned by uterine Nk cells. THE 'REF' COLUMN ON EACH ARRAY IS THE SIGNAL PRODUCED BY A COMMON REFERNCE RNA SAMPLE THAT WAS LABELLED AS A SINGLE BATCH SAMPLE AND HYBRIDISED TO ALL THE ARRAYS- IT IS A 'COMMON REFERENCE'. THE 'TEST' SAMPLE COMPRISES EACH INDIVIDUAL SAMPLE OF CELLS TREATED AS DESCRIBED IN THE SERIES SUBMISSION. FOR EXAMPLE; SAMPLE Y1 (gsm2435820) IS RNA FROM PATIENT 1 TREATED WITH CONTROL MEDIUM, SAMPLE G1 (GSM245371) IS RNA FROM PATIENT 1 TREATED WITH NK CONDITIONED MEDIUM THESE TWO SAMPLES THEREFORE FORM A PAIR- IE CELLS FROM THE SAME PATIENT TREATED WITH CONTROL OR NK-CONDITIONED MIDIUM. Y2,G2 ARE FROM PATIENT 2, ETC

Project description:The yellow variegated2 (var2) mutant in Arabidopsis thaliana has been studied as a typical leaf-variegated mutant whose defect results from the lack of FtsH2 metalloprotease in chloroplasts. The var2 green sectors suffer from photooxidative stress and accumulate high levels of reactive oxygen species (ROS) because of compromised Photosystem II repair. This study investigated and compared microarray-based expression profiles of green and white sectors of var2 leaves. Results suggest that ROS that accumulate in chloroplasts of var2 green sectors do not cause much significant change of the transcriptional profile related to ROS signaling and scavenging. In contrast, transcriptome in white sectors apparently differs from those in green sectors and wild type. Numerous genes related to photosynthesis and chloroplast functions were repressed in white sectors. Furthermore, many genes related to oxidative stress were up-regulated. Among them, we specifically examined ROS scavenging genes, such as Cu/Zn superoxide dismutase 2 (CSD2), that were apparently up-regulated in white but not in green sectors. Up-regulation of CSD2 appears to be partly attributable to the lack of a microRNA (miR398) in white sectors. Together, we concluded that white sectors exhibit response to oxidative and other stresses, including CSD2 up-regulation, which might be commonly found in tissues with abnormal chloroplast differentiation. Arabidopsis thaliana ecotype Columbia (Col), used as the wild-type, and var2-1 (var2) were grown in MS medium supplemented with Gamborgâ??s vitamins (Sigma-Aldrich). MS medium was supplemented with 1.5% (w/v) sucrose and 0.7% (w/v) agar. Plants were maintained under a 12 h light (70 Î¼molâ?¢m-2â?¢s-1)/12 h dark cycle at 22Â°C. Green and white sectors, surgically separated and collected from 4-week-old true leaves were subjected to total RNA extraction. We also extracted total RNA from Col. Three biological replicates were performed for each sample.

Dataset Information

Quantitative phosphoproteomic and physiological analyses provide insights into the formation of the variegated leaf in Catalpa fargesii

Publications

Quantitative Phosphoproteomic and Physiological Analyses Provide Insights into the Formation of the Variegated Leaf in <i>Catalpa fargesii</i>.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure