PXD008526

PXD008526 is an original dataset announced via ProteomeXchange.

Title	Comprehensive peptide analysis of mouse brain striatum identifies novel sORF-encoded polypeptides
Description	Bio-active peptides are involved in the regulation of most if not all physiological processes in the body. Classical bio-active peptides (CBAPs) are mostly cleaved from a larger precursor protein and stored in secretion vesicles from which they are released in the extracellular space to exert there (signaling) activity. Only recently, another non-classical type of bio-active peptides (NCBAPs) is being discovered. These typically are not secreted but instead appear to be translated from short open reading frames (sORF) and released directly into the cytoplasm. In contrast to CBAPs, they appear to be involved in the regulation of intra-cellular processes such as transcriptional control, calcium handling and DNA repair. However, bio-chemical evidence for the translation of these sORFs remains elusive. Comprehensive analysis of these sORF-encoded polypeptides (SEPs) by peptidomic approach is hampered by a number of methodological and biological challenges: the low molecular mass of SEPs (many are in the range of 4-10 KDa), their low abundance, their transient expression and many complications in data analysis to confidently identify these peptides. In this study, we developed a strategy to address these issues as much as possible. Since translation of these predicted sORFs is still controversial, our data-analysis strategy is aimed not to maximize the number of identifications but rather to exclude as much as possible false positive identifications. Applying this strategy to a mouse brain striatum sample, we identified 981 neuropeptides originated from 50 known (neuro)peptide precursors, demonstrating the sensitivity of the method applied. In addition, five SEPs were identified including NoBody, a SEP that was previously discovered in humans and four novel SEPS from 5’ untranslated transcript regions (UTRs).
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:13:27.772.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Harshavardhan Budamgunta
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	2-pyrrolidone-5-carboxylic acid (Glu); amidated residue; 2-pyrrolidone-5-carboxylic acid (Gln); phosphorylated residue; monohydroxylated residue; acetylated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2017-12-21 01:13:10	ID requested
1	2018-05-10 03:43:07	announced
⏵ 2	2024-10-22 04:13:31	announced	2024-10-22: Updated project metadata.

10.1002/pmic.201700218;

Budamgunta H, Olexiouk V, Luyten W, Schildermans K, Maes E, Boonen K, Menschaert G, Baggerman G, Comprehensive Peptide Analysis of Mouse Brain Striatum Identifies Novel sORF-Encoded Polypeptides. Proteomics, 18(10):e1700218(2018) [pubmed]

curator keyword: Biological

submitter keyword: 5’UTR, neuropeptides, peptidomic approach, ribosome profiling,Bio-active peptides, sORF, SEPs

Geert Baggerman
contact affiliation	University of Antwerp
contact email	geert.baggerman@uantwerpen.be
lab head
Harshavardhan Budamgunta
contact affiliation	University of Antwerp
contact email	harshavardhan.budamgunta@uantwerpen.be
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD008526
     1. Label: PRIDE project
     2. Name: Comprehensive peptide analysis of mouse brain striatum identifies novel sORF-encoded polypeptides