Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptional response to flg22-treatment in Arabidopsis thaliana lines mis-expressing the VQ-motif containing proteins MVQ1 or MVQ8._2

ABSTRACT: VQ-motif containing proteins (VQs) control gene expression via interaction with transcription factors. MVQ1 and MVQ8 are members of a subgroup of VQs that are phosphorylated by stress-responsive MAPKs and might play a role in the transcriptional regulation of plant defence responses. To investigate the possible roles played by MVQ1 or MVQ8, the flg22-regulated transcriptomes of an MVQ1-overexpression line, the mvq1 mutant, an MVQ8-overexpression line and WT (Col-0) plants were analysed.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Justin Lee

PROVIDER: E-MTAB-7725 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Expression analysis of Arabidopsis mpk11 mutant treated with flg22

Project description:Arabidopsis MPK11 is activated and plays a role in the flg22 sensing. Mitogen-activated protein kinases (MAPKs) mediate cellular signal transduction during stress responses, as well as diverse growth and developmental steps in eukaryotes. Pathogen infection or treatment with conserved pathogen-associated molecular patterns (PAMPs) such as the bacterial flagellin-derived flg22 peptide are known to activate three Arabidopsis thaliana MAPKs, MPK3, MPK4 and MPK6. Several stresses, including flg22 treatment, are known to increase MPK11 expression but activation of MPK11 has not been shown. Here, we show that MPK11 activity can indeed be increased through flg22 elicitation. Expression profiling using a small-scale microarray for defense-related genes revealed that cinnamyl alcohol dehyrogenase 5 (CAD5) requires MPK11 for full flg22-induced expression. An mpk11 mutant showed increased flg22-mediated growth inhibition but no altered susceptibility to Pseudomonas syringae, Botrytis cinerea or Alternaria brassicicola. A 24 DNA microarray study using toral RNA from an Arabidopsis mutant (mpk11 SALK049352) as well as wild type treated with water or flg22.

2012-05-02 | E-GEOD-33648 | biostudies-arrayexpress

Arabidopsis Col-0 and cerk1 treated with chitosan or water

Project description:Microbe-associated molecular pattern (MAMP)-triggered immunity (MTI) is the first layer of molecular defense encountered by pathogens when they attempt to infect plants. MTI is dependent on cell surface pattern-recognition receptors (PRR) which act upstream of mitogen-activated protein kinase (MAPK) pathways. Genetic screening and mutant knock-out lines have largely contributed to our knowledge of MTI. However, genetic screening is confined to phenotype-causing mutations and scarcely enables the discovery of redundantly-acting proteins. We sought to discover protein components that contribute in MTI, using a phenotype-independent approach to discern nucleus-localized proteins after MTI induction. We report on the nuclear proteome of Columbia-0 (Col-0) and chitin elicitor receptor kinase 1 (cerk1) mutant plants 15 min after MTI induction. Our approach revealed that MAMP-treated cerk1 plants had many proteins in common with Col-0-treated plants following chitosan treatment. cerk1 plants also manifested several unique proteins that were absent from Col-0 plants when elicited with chitosan indicating that they also perceive chitosan. Detailed analysis of the identified proteins revealed a nuclear accumulation of transcriptional regulators and transcription factors, DNA-modifying enzymes, RNA-binding proteins and ribosomal proteins. No novel MAPKs were found although Receptor for activated C kinase 1, a scaffold protein involved in defense, and a nucleotide binding leucine-rich repeat protein, implicated in resistance to Leptosphaeria maculans, were discovered in the nucleus of chitosan-treated plants and absent from water-treated control plants.

2018-10-26 | PXD003821 | Pride

The Arabidopsis Tandem Zinc Finger 9 (TZF9) is involved in global post-transcriptional regulation during PTI

Project description:The Arabidopsis Tandem Zinc Finger 9 (TZF9) is a putative RNA-binding protein that is localized to Processing Body-like structures. A tzf9 knock out line showed attenuated response to the Pattern-Associated Molecular Pattern (PAMP), flg22 (doi: 10.1093/pcp/pct175). To uncover the molecular mechanism for this phenotype, global gene expression analysis covering total RNA (transcriptome) and polysome-associated mRNAs (translatome) was performed. For the latter, a transgenic line expressing a FLAG-tagged ribosomal protein RPL18 was crossed to the tzf9 mutant. The results show a strong 'uncoupling' between transcriptome and translatome in the mutant, indicating that TZF9 could be involved in global post-transcriptional regulation process.

2019-10-18 | E-MTAB-6918 | biostudies-arrayexpress

Proteome-wide analysis of cysteine reactivity in Arabidopsis associated with biotic stress response

Project description:We used a method for the enrichment of proteins with oxidative post-translational modifications that enabled the comprehensive identification and label-free quantification of reversibly oxidized thiols across the plant proteome. The redoxomes were characterized in wild-type and the top1top2 null mutants in the early stages of effector-triggered immunity.

2019-03-19 | PXD010104 | Pride

Arabidopsis resistance to the Fungal Pathogen Drecslera gigantea in WT and bzip28 bzip60 mutant plants: the role of the Unfolded Protein Response (UPR) mechanism

Project description:Quantitative proteomic experiments were performed on tryptic digests of proteins purified from the leaves of Arabidopsis thaliana. Wild type plants were compared to bzip28 bzip60 mutant plants. WT and bzip28 bzip60 mutant plants were infected with Drecslera gigantea and compared to non¬-infected control plants

2021-09-09 | PXD018099 | Pride

Identifying crossover locations in Arabidopsis thaliana wild type Col-0 x Ct-1 F2 populations using genotyping-by-sequencing

Project description:Genomic DNA from 305 Col x Ct F2 individuals was extracted by CTAB and used to generate sequencing libraries as previously described (Hennig et al, 2018 G3). Sequencing data was analysed to identify crossovers using the TIGER pipeline as previously described (Rowan et al, 2015 G3; Yelina et al, 2015 Genes & Dev).

2020-09-02 | E-MTAB-9369 | biostudies-arrayexpress

Identifying crossover locations in Arabidopsis thaliana msh2 Col-0 x Ct-1 F2 populations using genotyping-by-sequencing

Project description:Genomic DNA from 320 msh2 Col x Ct F2 individuals was extracted by CTAB and used to generate sequencing libraries as previously described (Hennig et al, 2018 G3). Sequencing data was analysed to identify crossovers using the TIGER pipeline as previously described (Rowan et al, 2015 G3; Yelina et al, 2015 Genes & Dev).

2020-09-02 | E-MTAB-9370 | biostudies-arrayexpress

Identifying crossover locations in Arabidopsis thaliana sni1 Col-0 x Ct-1 F2 populations using genotyping-by-sequencing

Project description:Genomic DNA from 241 sni1-/- Col x Ct F2 individuals was extracted by CTAB and used to generate sequencing libraries as previously described (Hennig et al, 2018 G3). Sequencing data was analysed to identify crossovers using the TIGER pipeline as previously described (Rowan et al, 2015 G3; Yelina et al, 2015 Genes & Dev).

2020-12-31 | E-MTAB-9413 | biostudies-arrayexpress

Identifying crossover locations in Arabidopsis thaliana wild type and taf4b Col × Bur F2 populations using genotyping-by-sequencing

Project description:Genomic DNA from 180 Col/Bur F2 individuals, and 186 taf4b/Bur F2 individuals, was extracted by CTAB and used to generate sequencing libraries as previously described (Ziolkowski et al, 2017 Genes & Dev). Sequencing data was analysed to identify crossovers using the TIGER pipeline as previously described (Rowan et al, 2015 G3 (Bethesda); Yelina et al, 2015 Genes & Dev).

2019-12-31 | E-MTAB-8099 | biostudies-arrayexpress

Chromatin phosphoproteomics unravels a function for AT-hook motif nuclear localized protein AHL13 in PAMP-triggered immunity

Project description:Mitogen-activated protein kinases constitute essential signaling mechanisms linking external signal perception to gene expression in all eukaryotes. In Arabidopsis, MAPKs are found in the cytoplasmic and nuclear compartments, but no nuclear phosphoproteomic studies of mapk mutants were performed so far. In this work, we report a panel of nuclear and chromatin-associated targets by performing phosphoproteome analyses of wild-type and mpk3, mpk4, and mpk6 mutant plants. Since the three MAPKs play a role in cell division, development and innate immunity, we also analyzed the phosphoproteomes following microbe-associated molecular pattern (MAMP) treatment. A total of 165 proteins were identified to be differentially phosphorylated when compared between genotypes and in response to MAMP treatment. Using different criteria, including different biochemical and interaction assays, a number of the putative MAPK substrates were validated as true substrates for different MAPKs. Signaling networks for the three MAPKs revealed their common role in RNA transcription, RNA processing and chromatin organization, but also specific roles in development and organelle organization. Overall, this study unravels a set of chromatin-associated targets for these three MAPKs and promises novel insights into yet undiscovered domains linking MAPK signaling to a number of chromatin-related events.

2021-01-07 | PXD009823 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data