PXD026386

PXD026386 is an original dataset announced via ProteomeXchange.

Title	Alternative splicing modulation mediated by G-quadruplex structures in MALAT1 lncRNA
Description	MALAT1, an abundant lncRNA specifically localized to nuclear speckles, regulates alternative-splicing (AS). The molecular basis of its role in AS remains poorly understood. Here, we report three conserved, thermodynamically stable, parallel RNA-G-quadruplexes (rG4s) present in the 3’ region of MALAT1 which regulates this function. Using rG4 domain specific RNA-pull-down followed by mass-spectrometry, RNA-immuno-precipitation and imaging, we demonstrate the rG4 dependent localization of Nucleolin (NCL) and Nucleophosmin (NPM) to nuclear speckles. Specific G-to-A mutations that abolish rG4 structures, results in the localization loss of both the proteins from speckles. Functionally, disruption of rG4 in MALAT1 phenocopies NCL knockdown resulting in altered pre-mRNA splicing of endogenous genes. These results reveal a central role of rG4s within the 3’ region of MALAT1 orchestrating AS.
HostingRepository	PRIDE
AnnounceDate	2022-02-17
AnnouncementXML	Submission_2022-02-17_04:20:14.601.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Arpita Ghosh
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	TripleTOF 6600

Revision	Datetime	Status	ChangeLog Entry
0	2021-05-31 07:37:19	ID requested
⏵ 1	2022-02-17 04:20:15	announced

Ghosh A, Pandey SP, Ansari AH, Sundar JS, Singh P, Khan Y, Ekka MK, Chakraborty D, Maiti S, Alternative splicing modulation mediated by G-quadruplex structures in MALAT1 lncRNA. Nucleic Acids Res, 50(1):378-396(2022) [pubmed]

submitter keyword: MALAT1,lncRNA, G-quadruplex,alternative splicing,nucleolin

Souvik Maiti
contact affiliation	CSIR-Institute of Genomics & Integrative Biology, Mathura Road, Delhi 110025, India.
contact email	souvik@igib.res.in
lab head
Arpita Ghosh
contact affiliation	CSIR-Institute of Genomics & Integrative Biology, Mathura Road, Delhi 110025, India.
contact email	arpita.ghosh@igib.in
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD026386
     1. Label: PRIDE project
     2. Name: Alternative splicing modulation mediated by G-quadruplex structures in MALAT1 lncRNA