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Composition of Arabidopsis RNA exosomes having incorporated wild type or mutated myc-tagged RRP41 proteins

ABSTRACT: RRP41 is one of the nine subunits constituting the core complex of the eukaryotic RNA exosome. Data presented here allowed a proteomic characterization of the interactome of wild type or mutated myc-tagged RRP41 proteins incorporated into the RNA exosome. Flowers from myc-tagged RRP41 expressing lines were used to affinity purify RNA exosomes, which were analyzed by nanoLC-MS/MS analysis. Non-transgenic Arabidopsis lines of Col-0 accession were used in mock-immunoprecipitation experiments as negative controls.

OTHER RELATED OMICS DATASETS IN: GSE96948PRJNA380302PRJNA380203PRJNA380303

INSTRUMENT(S): TripleTOF 5600

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

TISSUE(S): Flower

SUBMITTER: Lauriane Kuhn

LAB HEAD: Gagliardi Dominique

PROVIDER: PXD007984 | Pride | 2018-01-02

REPOSITORIES: pride

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			Action	DRS
	Col-0-1.mgf	Mgf
	Col-0-1.wiff	Wiff
	Col-0-1.wiff.scan	Wiff
	Col-0-2.mgf	Mgf
	Col-0-2.wiff	Wiff

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Publications

RNA degradation by the plant RNA exosome involves both phosphorolytic and hydrolytic activities.

Sikorska Natalia N Zuber Hélène H Gobert Anthony A Lange Heike H Gagliardi Dominique D

Nature communications 20171218 1

The RNA exosome provides eukaryotic cells with an essential 3'-5' exoribonucleolytic activity, which processes or eliminates many classes of RNAs. Its nine-subunit core (Exo9) is structurally related to prokaryotic phosphorolytic exoribonucleases. Yet, yeast and animal Exo9s have lost the primordial phosphorolytic capacity and rely instead on associated hydrolytic ribonucleases for catalytic activity. Here, we demonstrate that Arabidopsis Exo9 has retained a distributive phosphorolytic activity, ...[more]

PMID: 29255150

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Proteomic profiling of NCI60 cell lines from Cancer Cell Line Encyclopedia

Project description:This ArrayExpress record contains meta-data and results of quantitative analysis of cell lines from the NCI-60 panel using pressure cycling technology (PCT) and SWATH-mass spectrometry. Each cell line was analyzed in duplicate. Raw data files are available at the EMBL-EBI protemics data archive (PRIDE) at accession PXD003539 (http://www.ebi.ac.uk/pride/archive/projects/PXD003539). Since the record here does not include the raw data files and hence there is no need to explicitly link individual replicate to a raw file, each sample is only listed once in the ArrayExpress samples table for clarity.

2017-01-27 | E-PROT-2 | biostudies-arrayexpress

Post-transcriptional control of a stemness signature by RNA-binding 8 protein MEX3A regulates adult neurogenesis

Project description:Neural stem cells (NSCs) in the adult mammalian subependymal zone maintain a glial identity and the developmental potential to generate neurons during the lifetime. Production of neurons from these NSCs is not direct but follows an orderly pattern of cell progression which allows the gradual increase along the neurogenic lineage in the expression of pro-neural factors needed for neuronal specification. In this context, tightly regulated translation of existing transcriptional programs represents a potential mechanism to avoid the critical challenge posed by genes that encode proteins with conflicting functions, i.e. self-renew or differentiate. Here, we identify RNA-binding protein MEX3A as a post-transcriptional regulator of a set of stemness-associated transcripts at critical transitions in the subependymal neurogenic lineage. MEX3A binding to a set of quiescence-related RNAs in activated NSCs is needed for their return to quiescence, playing a role in the long-term maintenance of the NSC pool. Furthermore, it is required for the repression of the same program at the onset of neuronal differentiation. Our data indicate that MEX3A is a pivotal regulator of adult mammalian neurogenesis acting as a translational remodeller.

2023-01-08 | PXD038983 | Pride

Ability of the marine bacterium Pseudomonas fluorescens BA3SM1 tocounteract the toxicity of CdSe nanoparticles

Project description:CdSe nanoparticles (CdSe NPs) are extensively used in the industry of renewable energies and it is regrettably expectedthat these pollutants will sometime soon appear in marine environmentthrough surface runoff, urban effluents and rivers. Bacteria living in estuarine and coastal sediments will be among the first targets of these new pollutants. The pseudomonads are frequently encountered in these ecosystems. They are involved in several biogeochemical cycles and are known for their high resistance to pollutants. Consequently, this study focussing on the effect of CdSe NPs on the marine strain P. fluorescensBA3SM1 is highly relevant for a number of reasons. First, it aims at improving knowledge about the interactions between bacteria and NPs. This is fundamental to use effectively NPs against pathogenic bacteria. Secondly, this study shows that CdSe NPs of 8 nm in diameter cause a decrease in the secretion of siderophorepyoverdine, a secondary metabolite having a key role in microbial ecology and also employed as a virulence factor in human pathogenic strains such as P. aeruginosa. Consequently, this study highlights that CdSe NPs can have an impact on secondary metabolism of bacteria with environmental and medical implications.

2016-08-17 | PXD004012 | Pride

Proteomic analysis of secreted proteins from Salmonella cells deficient in STnc470

Project description:This study has the main goal of studying the impact of the small non coding RNA STnc470 on protein expression and secretion.

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Qualitative and Quantitative proteomic analyses of Schistosoma japonicum Eggs and Egg-derived Secretory-Excretory proteins

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2019-09-26 | PXD012835 | Pride

PTMs in yeast complexes - We investigate the roles of natively present PTMs on stability of interactions in three large and essential yeast Saccharomyces cerevisiae complexes: exosome, RNA polymerase II and 26S proteasome.

Project description:We investigate the roles of natively present PTMs on stability of interactions in three large and essential yeast Saccharomyces cerevisiae complexes: exosome, RNA polymerase II and 26S proteasome.

2018-09-13 | PXD008324 | Pride

BALF Biomarkers in lung cancer

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2022-02-28 | PXD004517 | Pride

Comparative analysis of retroviral Gag-host cell interactions in the nucleus

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Proteomic profiling of RNA binding proteins in mouse spermatogonial stem cell

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