Data · dataset · 2016
Proteome distribution between nucleoplasm and nucleolus and its relation to ribosome biogenesis in A. thaliana
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Ribosome biogenesis is an essential process initiated in the nucleolus.
Description
In eukaryotes, multiple ribosome biogenesis factors (RBFs) can be found in the nucleolus, the nucleus and in the cytoplasm. They act in processing, folding and modification of the pre-ribosomal (r)RNAs, incorporation of ribosomal proteins (RPs), export of pre-ribosomal particles to the cytoplasm, and quality control mechanisms.
Ribosome biogenesis is best established for Saccharomyces cerevisiae . Plant orthologue assignment to yeast RBFs revealed the absence of about 30% of the yeast RBFs in plants. In turn, few plant specific proteins have been identified by biochemical experiments to act in plant ribosome biogenesis.
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Nevertheless, a complete inventory of plant RBFs has not been established yet. We analysed the proteome of the nucleus and nucleolus of Arabidopsis thaliana and the post-translational modifications of these proteins. We identified 1602 proteins in the nucleolar and 2544 proteins in the nuclear fraction with an overlap of 1429 proteins.
For a randomly selected set of proteins identified by the proteomic approach we confirmed the localization inferred from the proteomics data by the localization of GFP fusion proteins. We assigned the identified proteins to various complexes and functions and found about 519 plant proteins that have a potential to act as a RBFs, but which have not been experimentally characterized yet. Last, we compared the distribution of RBFs and RPs in the various fractions with the distribution established for yeast.
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Where it is published
- Repository landing page tandf.figshare.com/articles/dataset/Proteome_distribution_between_nucleoplasm_and… ↗
landing page · from DataCite
- DOI doi.org/10.6084/m9.figshare.3115576.v1 ↗
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Documentation and papers
- Creative Commons Attribution 4.0 International creativecommons.org/licenses/by/4.0/legalcode ↗
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- IsSupplementTo 10.1080/15476286.2016.1154252 doi.org/10.1080/15476286.2016.1154252 ↗
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Catalogue records · 2
- DataCite API api.datacite.org/dois/10.6084/m9.figshare.3115576.v1 ↗
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- DataCite Commons commons.datacite.org/doi.org/10.6084/m9.figshare.3115576.v1 ↗
catalogue entry · from DataCite
Topics
- Stated by source
- Biological sciences · Health sciences · Physical sciences
- From keywords
- Medicine & Health
- Inferred from text
- Mass spectrometry 65%
Related
Provenance · 1 source records, 13 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| DataCite | 10.6084/m9.figshare.3115576.v1 | 12 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · DataCite | connector:datacite@1.0.0 | /data/attributes/rightsList |
| byte_size | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].fos:biological-sciences | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].fos:health-sciences | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].fos:physical-sciences | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · DataCite | vocabulary-mapper@1.0.0 | keywords['Medicine'] |
| concepts[modality].local:modality:mass-spectrometry | enrichment · DataCite | keyword-concept-rules@1.0.0 | title+description (65%) |
| created_date | source · DataCite | connector:datacite@1.0.0 | |
| description | source · DataCite | connector:datacite@1.0.0 | /data/attributes/descriptions |
| license | source · DataCite | connector:datacite@1.0.0 | /data/attributes/rightsList |
| publication_date | source · DataCite | connector:datacite@1.0.0 | /data/attributes/dates |
| title | source · DataCite | connector:datacite@1.0.0 | /data/attributes/titles/0/title |
| updated_date | source · DataCite | connector:datacite@1.0.0 |