Dataset Information

The proteome of cytomatrix and cytosol

ABSTRACT: The cytoplasm is an essential part of the cell involved in protein synthesis, energy generation, nutrient processing, transport, metabolism, and homeostasis, but its structure and function are not entirely understood. Almost five decades ago, dynamic nano-compartments of the cytoplasm were observed by high voltage electron microscopy in every living cell. However, the validity of these constructs, have been questioned and counterclaimed as artifacts of histo-techniques. We developed a new method to separate and characterize two different cytoplasmic compartments that we named cytomatrix and cytosol (or cytomedia). Using two compositional different solvents we were able sequentially extract the cytosol (cyto-solution) first then separate the cytomatrix from the nucleus. Our method allows fractionate the cell into three fractions: the cytosol, cytomatrix, and the nucleus.

INSTRUMENT(S): Orbitrap Fusion Lumos

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Permanent Cell Line Cell

SUBMITTER: Nelufa Islam

LAB HEAD: Tattym E Shaiken

PROVIDER: PXD031043 | Pride | 2023-03-11

REPOSITORIES: pride

ACCESS DATA

Dataset's files

Source:

			Action	DRS
	47363_2_MSPCL_718_none_2ug_F1.msf	Msf
	47363_2_MSPCL_718_none_2ug_F1.raw	Raw
	47363_2_MSPCL_718_none_2ug_F2.msf	Msf
	47363_2_MSPCL_718_none_2ug_F2.raw	Raw
	47363_2_MSPCL_718_none_2ug_F3.msf	Msf

Items per page:

1 - 5 of 81

Publications

Transcriptome, proteome, and protein synthesis within the intracellular cytomatrix.

Shaiken Tattym E TE Grimm Sandra L SL Siam Mohamad M Williams Amanda A Rezaeian Abdol-Hossein AH Kraushaar Daniel D Ricco Emily E Robertson Matthew J MJ Coarfa Cristian C Jain Antrix A Malovannaya Anna A Stossi Fabio F Opekun Antone R AR Price Alyssa P AP Dubrulle Julien J

iScience 20230113 2

Despite the knowledge that protein translation and various metabolic reactions that create and sustain cellular life occur in the cytoplasm, the structural organization within the cytoplasm remains unclear. Recent models indicate that cytoplasm contains viscous fluid and elastic solid phases. We separated these viscous fluid and solid elastic compartments, which we call the cytosol and cytomatrix, respectively. The distinctive composition of the cytomatrix included structural proteins, ribosomes ...[more]

PMID: 36824274

Dataset Information

The proteome of cytomatrix and cytosol

Dataset's files

Publications

Transcriptome, proteome, and protein synthesis within the intracellular cytomatrix.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets

Similar Datasets

HiRIEF-LC-MS based proteomics analysis of subcellular fractions of human CD4+ T-Cells with and without T-cell Receptor stimulation.
2019-11-13 | PXD013284 | Pride

BAP-seq proximity labeling of subcellular compartments
2024-04-05 | GSE229451 | GEO

Galectin-3 interacts with components of the nuclear ribonucleoprotein complex
2016-06-07 | E-MTAB-4783 | biostudies-arrayexpress

SlamSeq of subcellular compartments in mouse primary cortical neurons
2023-07-12 | E-MTAB-12888 | biostudies-arrayexpress

mRNA-Seq of neuronal compartments with perturbed mRNA degradation machinery (overexpression of dnCaf1) in mouse primary cortical neurons
2023-07-12 | E-MTAB-12887 | biostudies-arrayexpress

Multiple cellular compartments engagement in Nicotiana benthamiana-peanut stunt virus-satRNA interactions revealed by systems biology approach
2021-05-27 | GSE128200 | GEO

Subcellular fractionation in Ramos B-cells
2022-02-14 | PXD003939 | Pride

Spatial and temporal proteomics reveals distinct distribution and dynamics of O-GlcNAcylated proteins
2022-05-03 | MSV000089413 | MassIVE

Kawka2014 - Revealing the role of SGK1 in the dynamics of medulloblastoma using a mathematical model
2019-12-09 | MODEL1912090002 | BioModels

Wolbachia infection modifies the profile, shuttling and structure of microRNAs in a mosquito cell line
2014-02-22 | E-GEOD-55210 | biostudies-arrayexpress