PXD024029-1

PXD024029 is an original dataset announced via ProteomeXchange.

Title	Shadow ORFs illuminated: long overlapping genes in Pseudomonas aeruginosa are translated and under purifying selection
Description	The existence of overlapping genes (OLGs) with significant coding overlaps revolutionises our understanding of genomic complexity. We report two exceptionally long (957 nt and 1536 nt), evolutionarily novel, translated antisense open reading frames (ORFs) embedded within annotated genes in Pseudomonas aeruginosa. Both OLG pairs show features consistent with being genes and transcriptional signals as indicated by transcriptome sequencing. Translation of both OLGs was confirmed by ribosome profiling as well as mass spectrometry. Quantitative proteomics of samples taken during different phases of growth revealed regulation of protein abundances, implying biological functionality. Both OLGs are taxonomically highly restricted and likely arose by overprinting within the genus. Evidence for purifying selection further supports functionality. The here established OLGs are the longest yet proposed in prokaryotes and are the best attested in terms of translation and evolutionary constraint.
HostingRepository	PanoramaPublic
AnnounceDate	2021-02-08
AnnouncementXML	Submission_2021-02-08_06:08:51.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Christina Ludwig
SpeciesList	scientific name: Pseudomonas aeruginosa; NCBI TaxID: 287;
ModificationList	Label:13C(6)15N(2); Label:13C(6)15N(4)
Instrument	Q Exactive HF-X

Revision	Datetime	Status	ChangeLog Entry
0	2021-02-07 20:43:31	ID requested
⏵ 1	2021-02-08 06:08:52	announced

Dataset with its publication pending

submitter keyword: Overlapping genes, mass spectrometry, ribosome profiling, orphan genes, overprinting, de novo gene origin

Christina Ludwig
contact affiliation	Bavarian Center for Biomolecular Mass Spectrometry (BayBioMS), Technical University Munich (TUM), Germany
contact email	tina.ludwig@tum.de
lab head
Christina Ludwig
contact affiliation	Bavarian Center for Biomolecular Mass Spectrometry (BayBioMS), Technical University Munich (TUM), Germany
contact email	tina.ludwig@tum.de
dataset submitter

Panorama Public dataset URI