Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

GFPtrap enrichment of CYP83A1 and CYP83B1

ABSTRACT: CYP83A1 and CYP83B1 are important enzymes in the biosynthesis of glucosinolates. However, only few of their interaction partners are known so far. We therefore performed a GFPtrap affinity enrichment using protein extracts from lines expressing tagged CYP83A1 or CYP83B1, or from wild type plants as background control.

INSTRUMENT(S): LTQ Orbitrap Velos

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

TISSUE(S): Seedling

SUBMITTER: Katja Baerenfaller

LAB HEAD: Katja Baerenfaller

PROVIDER: PXD005585 | Pride | 2017-11-30

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	20151013_02_W1.mgf	Mgf
	20151013_02_W1.raw	Raw
	20151013_03_W2.mgf	Mgf
	20151013_03_W2.raw	Raw
	20151013_04_W3.mgf	Mgf

Items per page:

1 - 5 of 56

Publications

Unravelling Protein-Protein Interaction Networks Linked to Aliphatic and Indole Glucosinolate Biosynthetic Pathways in Arabidopsis.

Nintemann Sebastian J SJ Vik Daniel D Svozil Julia J Bak Michael M Baerenfaller Katja K Burow Meike M Halkier Barbara A BA

Frontiers in plant science 20171129

Within the cell, biosynthetic pathways are embedded in protein-protein interaction networks. In Arabidopsis, the biosynthetic pathways of aliphatic and indole glucosinolate defense compounds are well-characterized. However, little is known about the spatial orchestration of these enzymes and their interplay with the cellular environment. To address these aspects, we applied two complementary, untargeted approaches-split-ubiquitin yeast 2-hybrid and co-immunoprecipitation screens-to identify prot ...[more]

PMID: 29238354

Similar Datasets

Differences in proteasome targeting in Arabidopsis leaf mesophyll, epidermal and vascular cells

Project description:For the detailed and sensitive detection of the responses to a specific treatment it is important to perform tissue or cell type specific analyses, but this is not easily achievable for the different leaf tissues. Here we developed a method termed MeSelect to effectively separate leaf epidermis, vascular and mesophyll cells basically without contamination from other tissues. The high yield of the MeSelect method allowed for tissue specific high-throughput proteome analyses after inhibition of the proteasome with Syringolin A and the affinity enrichment of polyubiquitylated proteins in epidermis, mesophyll and vasculature.

2015-05-14 | PXD000941 | Pride

Protein abundance changes and ubiquitylation targets identified upon inhibition of the proteasome with Syringolin A

Project description:The numerous roles of the ubiquitin proteasome system (UPS) in cellular control have triggered interest in the identification of these ubiquitylation targets and their sites of ubiquitylation. For the identification of ubiquitylated proteins we employed affinity enrichment using an ubiquitin binding domains (UBAs). A change in the experimental set-up allowed for the identification of proteins that so far have been refractory to identification. We also investigated the changes in protein abundance upon interfering with the UPS by inhibition of the proteasome with the specific inhibitor Syringolin A and using a mutant overexpressing ubiquitin that cannot form K48-linked polyubiquitin chains.

2014-04-15 | PXD000567 | Pride

Protein abundance changes and ubiquitylation targets identified upon inhibition of the proteasome with Syringolin A

2014-04-15 | PXD000521 | Pride

Protein abundance changes and ubiquitylation targets identified upon inhibition of the proteasome with Syringolin A

2014-04-15 | PXD000566 | Pride

Protein abundance changes and ubiquitylation targets identified upon inhibition of the proteasome with Syringolin A

2014-04-15 | PXD000565 | Pride

Differences in proteasome targeting in Arabidopsis leaf mesophyll, epidermal and vascular cells

2015-05-13 | PXD000942 | Pride

Protein abundance changes and ubiquitylation targets identified upon inhibition of the proteasome with Syringolin A

2014-05-19 | PXD000568 | Pride

A universal method for the rapid isolation of all known classes of functional small RNAs

Project description:Diverse classes of regulatory small (s)RNAs operate via ARGONAUTE-family proteins within RNA-induced-silencing-complexes (RISCs). Based the conserved biochemical properties intrinsic to all ARGONAUTEs, we have developed a universal, 15-min benchtop extraction procedure allowing simultaneous purification of all classes of RISC-associated sRNAs, without prior knowledge of the sample’s -intrinsic ARGONAUTE repertoires. Optimized as a user-friendly kit, the method –coined “TraPR” for Trans-kingdom, rapid, affordable Purification of RISCs– operates irrespectively of the organism, tissue, cell type or bio-fluid of interest, and scales to minute amounts of input material. The method is highly suited for direct sRNA deep-sequencing, with TraPR-generated libraries being qualitatively at least on-par with those obtained via gold-standard procedures that require immunoprecipitations and/or lengthy polyacrylamide gel excisions. TraPR considerably improves the quality and consistency of sRNA sample preparation including from notoriously difficult-to-handle tissues/bio-fluids such as starchy storage roots and mammalian plasma, and regardless of RNA contaminants or samples’ RNA-degradation status.

2021-09-08 | PXD015395 | Pride

Coupling between alternative polyadenylation and alternative splicing is limited to terminal introns

Project description:Alternative polyadenylation has been implicated as an important regulator of gene expression. In some cases, alternative polyadenylation is known to couple with alternative splicing to influence last intron removal. However, it is unknown whether alternative polyadenylation events influence alternative splicing decisions at upstream exons. Knockdown of the polyadenylation factors CFIm25 or CstF64 was used as an approach in identifying alternative polyadenylation and alternative splicing events on a genome-wide scale. Although hundreds of alternative splicing events were found to be differentially spliced in the knockdown of CstF64, genes associated with alternative polyadenylation did not exhibit an increased incidence of alternative splicing. These results demonstrate that the coupling between alternative polyadenylation and alternative splicing is usually limited to defining the last exon. The striking influence of CstF64 knockdown on alternative splicing can be explained through its effects on UTR selection of known splicing regulators such as hnRNP A2/B1, thereby indirectly influencing splice site selection. We conclude that changes in the expression of the polyadenylation factor CstF64 influences alternative splicing through indirect effects. HeLa cell line was stably transfected with shRNA plasmids targeting CstF64. Total RNA was isolated from CstF64 KD cells and wild-type control cells using Trizol according to manufacturerâs protocols. Samples were deep sequenced in duplicate using the Illumina GAIIx system.

2016-03-14 | E-GEOD-79157 | biostudies-arrayexpress

Agron-omics Long Day Optimal Watering (LOW) experiment

Project description:Plants adapt to the prevailing photoperiod by optimally adjusting growth and flowering to the availability of energy. When Arabidopsis thaliana plants are grown in long days individual leaf growth is favoured, whereas whole plant leaf area is decreased because of the rapid shift to floral stages and, consequently, the low number of total leaves. To understand the molecular profiles of adaptation to long-day conditions we profiled Arabidopsis leaf number six of plants grown in 16 hours of light at four developmental stages both at the end of the day and the end of the night and compared the profiles to those acquired in short day conditions.

2015-12-14 | PXD000908 | 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