Dataset Information

Membrane proteomics of Arabidopsis glucosinolate mutants cyp79B2/B3 and myb28/29

ABSTRACT: in our previous work we studied the molecular networks cotrolling their metabolism in Arabidopsis thaliana on the level of soluble proteome and metebolome using myb28/29 and cyp79B2/B3 as mutants for aliphilic and indollic glucosinolates production respectively.we go deeper to study the changes on the level of membrane and membrane associated proteins in both mutants.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Arabidopsis Thaliana (mouse-ear Cress)

SUBMITTER: Ning Zhu

LAB HEAD: Ning Zhu

PROVIDER: PXD005781 | Pride | 2017-06-19

REPOSITORIES: Pride

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Membrane Proteomics of Arabidopsis Glucosinolate Mutants cyp79B2/B3 and myb28/29.

Mostafa Islam I Yoo Mi-Jeong MJ Zhu Ning N Geng Sisi S Dufresne Craig C Abou-Hashem Maged M El-Domiaty Maher M Chen Sixue S

Frontiers in plant science 20170411

Glucosinolates (Gls) constitute a major group of natural metabolites represented by three major classes (aliphatic, indolic and aromatic) of more than 120 chemical structures. In our previous work, soluble proteins and metabolites in Arabidopsis mutants deficient of aliphatic (myb28/29) and indolic Gls (cyp79B2B3) were analyzed. Here we focus on investigating the changes at the level of membrane proteins in these mutants. Our LC/MS-MS analyses of tandem mass tag (TMT) labeled pepti ...[more]

PMID: 28443122

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Project description:"The main goal of the project is to develop a new generation of bioinformatics resources for the integrative analysis of multiple types of omics data. These resources include both novel statistical methodologies as well as user-friendly software implementations. STATegra methods address many aspects of the omics data integration problem such as the design of multiomics experiments, integrative transcriptional and regulatory networks, integrative variable selection, data fusion, integration of public domain data, and integrative pathway analysis. To support method development STATegra uses a model biological system, namely the differentiation process of mouse pre-B-cells. The STATegra consortium generated data focused on a critical step in the differentiation of B lymphocytes, which are key components of the adaptive immune system. Transcription factors of the Ikaros family are central to the normal differentiation of B cell progenitors and their expression increases in response to developmental stage-specific signals to terminate the proliferation of B cell progenitors and to initiate their differentiation. In particular, a novel biological system that models the transition from the pre-BI stage to the pre-BII subsequent stage, where B cell progenitors undergo growth arrest and differentiation, was used. The approach involves a pre-B cell line, B3 , and an inducible version of the Ikaros transcription factor, Ikaros-ERt2. Ikaros factors act to down-regulate genes that drive proliferation and to simultaneously up-regulate the expression of genes that promote the differentiation of B cell progenitors. Hence, in the B3 system, before induction of Ikaros, cells proliferate and their gene expression pattern is similar to proliferating B cell progenitors in vivo. Following Ikaros induction, B3 cells undergo gene expression changes that resemble those that occur in vivo during the transition from cycling to resting pre-B cells, followed by a marked reduction in cellular proliferation and by G1 arrest. On this system the consortium has created a high-quality data collection consisting of a replicated time course using seven different omics platforms: RNA-seq, miRNA-seq, ChIP-seq, DNase-seq, Methyl-seq, proteomics and metabolomics, which is used to assess and to validate STATegra methods."

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Dataset Information

Membrane proteomics of Arabidopsis glucosinolate mutants cyp79B2/B3 and myb28/29

Dataset's files

Publications

Membrane Proteomics of Arabidopsis Glucosinolate Mutants <i>cyp79B2/B3</i> and <i>myb28/29</i>.

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