PXD005827

PXD005827 is an original dataset announced via ProteomeXchange.

Title	Trade-off between transcriptome plasticity and genome evolution in cephalopods
Description	RNA editing by adenosine deamination is well-positioned to diversify proteomes, but it is infrequently used for this purpose. Recent reports have suggested that squid may be an exception. We show that extensive recoding by RNA editing is an invention of the behaviorally sophisticated coleoid cephalopods, with tens of thousands of evolutionarily conserved sites. Editing is enriched in the nervous system and targets excitability and neuronal morphology. Many edited codons are translated into protein and in some cases cause functional changes. The genomic sequence flanking these sites is highly conserved to maintain the structures required for editing, suggesting that the process confers a selective advantage. Due to the large number of sites, the surrounding conservation greatly reduces the number of mutations and genomic polymorphisms that accumulate in protein coding regions. This trade-off between genome evolution and transcriptome plasticity highlights the importance of RNA recoding as a novel strategy for neural complexity.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:35:59.399.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Tamar Ziv
SpeciesList	scientific name: Doryteuthis pealeii; NCBI TaxID: 1051067;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2017-02-01 06:03:25	ID requested
1	2017-04-11 04:13:57	announced
⏵ 2	2024-10-22 04:36:00	announced	2024-10-22: Updated project metadata.

Liscovitch-Brauer N, Alon S, Porath HT, Elstein B, Unger R, Ziv T, Admon A, Levanon EY, Rosenthal JJC, Eisenberg E, Trade-off between Transcriptome Plasticity and Genome Evolution in Cephalopods. Cell, 169(2):191-202.e11(2017) [pubmed]

10.1016/j.cell.2017.03.025;

curator keyword: Biological

submitter keyword: RNA modifications, Cephalopods, ADAR, Neural plasticity, Genome evolution, RNA editing, Proteome diversity,Epitranscriptome

Eli Eisenberg
contact affiliation	Tel Aviv University
contact email	elieis@post.tau.ac.il
lab head
Tamar Ziv
contact affiliation	Technion
contact email	tamarz@tx.technion.ac.il
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/2017/04/PXD005827

PRIDE project URI

• PRIDE
  1. PXD005827
     1. Label: PRIDE project
     2. Name: Trade-off between transcriptome plasticity and genome evolution in cephalopods