PXD012926

PXD012926 is an original dataset announced via ProteomeXchange.

Title	Identification of evolutionarily conserved nuclear matrix proteins and their prokaryotic origins
Description	Compared to prokaryotic cells, a typical eukaryotic cell is much more complex along with its endomembrane system and membrane-bound organelles. Although the endosymbiosis theories convincingly explain the evolution of membrane-bound organelles such as mitochondria and chloroplasts, very little is understood about the evolutionary origins of the nucleus, the defining feature of eukaryotes. Most studies on nuclear evolution have not been able to take into consideration the underlying structural framework of the nucleus known as the nuclear matrix (NuMat), a ribonucleoproteinaceous structure. This can largely be attributed to the lack of annotation of its core components. Since, NuMat has been shown to provide a structural platform for facilitating variety of nuclear functions such as replication, transcription, and splicing, it is important to identify its protein components to better understand these processes. In this study, we address this issue using the developing embryos of D. melanogaster and D. rerio and identify 362 core NuMat proteins that are conserved between the two organisms. We find that of them, 68 proteins are conserved across all eukaryotes and, therefore, have been indispensable for nuclear function for over 1.5 billion years of eukaryotic history. We also traced the prokaryotic origins of a significant proportion of the core NuMat proteins which paves the way to understand the evolution of nuclear architecture and functions.
HostingRepository	PRIDE
AnnounceDate	2021-01-26
AnnouncementXML	Submission_2021-01-26_04:52:00.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Rahul Sureka
SpeciesList	scientific name: Danio rerio (Zebrafish) (Brachydanio rerio); NCBI TaxID: 7955; scientific name: Drosophila melanogaster (Fruit fly); NCBI TaxID: 7227;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2019-03-01 02:58:00	ID requested
⏵ 1	2021-01-26 04:52:01	announced

Sureka R, Mishra R, Identification of Evolutionarily Conserved Nuclear Matrix Proteins and Their Prokaryotic Origins. J Proteome Res, 20(1):518-530(2021) [pubmed]

ProteomeXchange project tag: Epigenetic Chromatin (B/D-HPP)

submitter keyword: Nuclear architecture, nuclear evolution, nuclear matrix, nucleoskeleton, core nuclear matrix proteome

Rakesh Kumar Mishra
contact affiliation	CSIR-CENTRE FOR CELLULAR AND MOLECULAR BIOLOGY
contact email	mishra@ccmb.res.in
lab head
Rahul Sureka
contact affiliation	CSIR-Centre for Cellular and Molecular Biology
contact email	rahul@csirccmb.org
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2021/01/PXD012926

PRIDE project URI

• PRIDE
  1. PXD012926
     1. Label: PRIDE project
     2. Name: Identification of evolutionarily conserved nuclear matrix proteins and their prokaryotic origins