PXD008147

PXD008147 is an original dataset announced via ProteomeXchange.

Title	First evidence that a protein coded by a short ORF, not by the annotated CDS is the main gene product
Description	Proteogenomics and ribosome profiling concurrently show that genes may code for both a large and one or more small proteins translated from annotated coding sequences (CDSs) and unannotated alternative open reading frames (named alternative ORFs or altORFs), respectively, but the stoichiometry between large and small proteins translated from the same gene is unknown. \textit{MIEF1}, a gene recently identified as a dual-coding gene, harbours a CDS and a newly annotated and actively translated altORF located in the 5’UTR . Here, we use absolute quantification with stable isotope-labeled peptides and parallel reaction monitoring to determine levels of both proteins in two human cells lines and in human colon. We report that the main \textit{MIEF1} translational product is not the canonical 463 amino acid MiD51 protein but the small 70 amino acid alternative MiD51 protein (altMiD51). These results demonstrate the inadequacy of the single CDS concept and provide a strong argument for modernizing functional annotations of genes.
HostingRepository	PRIDE
AnnounceDate	2018-11-21
AnnouncementXML	Submission_2018-11-21_09:26:03.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Vivian Delcourt
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2017-11-07 01:41:47	ID requested
⏵ 1	2018-11-21 09:26:04	announced

Delcourt V, Brunelle M, Roy AV, Jacques JF, Salzet M, Fournier I, Roucou X, . Mol Cell Proteomics, 17(12):2402-2411(2018) [pubmed]

curator keyword: Biological

submitter keyword: Short ORF, Targeted proteomics, Translation, CRISPR-Cas9

Xavier Roucou
contact affiliation	Département de Biochimie, Université de Sherbrooke, Québec, Canada
contact email	xavier.roucou@usherbrooke.ca
lab head
Vivian Delcourt
contact affiliation	Université de Sherbrooke - Université de Lille
contact email	vivian.delcourt@usherbrooke.ca
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD008147
     1. Label: PRIDE project
     2. Name: First evidence that a protein coded by a short ORF, not by the annotated CDS is the main gene product