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J Biol Chem. 2017 Nov 3;292(44):18240-18255. doi: 10.1074/jbc.M117.813527. Epub 2017 Sep 15.

Phosphoproteomics reveals that glycogen synthase kinase-3 phosphorylates multiple splicing factors and is associated with alternative splicing.

Author information

1
From the Pharmacology Graduate Group.
2
the Penn Epigenetics Institute.
3
the Department of Biochemistry and Biophysics.
4
the Cell and Molecular Biology Graduate Group.
5
the Department of Medicine (Hematology-Oncology), and.
6
the Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania 19104.
7
From the Pharmacology Graduate Group, pklein@pennmedicine.upenn.edu.

Abstract

Glycogen synthase kinase-3 (GSK-3) is a constitutively active, ubiquitously expressed protein kinase that regulates multiple signaling pathways. In vitro kinase assays and genetic and pharmacological manipulations of GSK-3 have identified more than 100 putative GSK-3 substrates in diverse cell types. Many more have been predicted on the basis of a recurrent GSK-3 consensus motif ((pS/pT)XXX(S/T)), but this prediction has not been tested by analyzing the GSK-3 phosphoproteome. Using stable isotope labeling of amino acids in culture (SILAC) and MS techniques to analyze the repertoire of GSK-3-dependent phosphorylation in mouse embryonic stem cells (ESCs), we found that ∼2.4% of (pS/pT)XXX(S/T) sites are phosphorylated in a GSK-3-dependent manner. A comparison of WT and Gsk3a;Gsk3b knock-out (Gsk3 DKO) ESCs revealed prominent GSK-3-dependent phosphorylation of multiple splicing factors and regulators of RNA biosynthesis as well as proteins that regulate transcription, translation, and cell division. Gsk3 DKO reduced phosphorylation of the splicing factors RBM8A, SRSF9, and PSF as well as the nucleolar proteins NPM1 and PHF6, and recombinant GSK-3β phosphorylated these proteins in vitro RNA-Seq of WT and Gsk3 DKO ESCs identified ∼190 genes that are alternatively spliced in a GSK-3-dependent manner, supporting a broad role for GSK-3 in regulating alternative splicing. The MS data also identified posttranscriptional regulation of protein abundance by GSK-3, with ∼47 proteins (1.4%) whose levels increased and ∼78 (2.4%) whose levels decreased in the absence of GSK-3. This study provides the first unbiased analysis of the GSK-3 phosphoproteome and strong evidence that GSK-3 broadly regulates alternative splicing.

KEYWORDS:

SILAC; Wnt signaling; alternative splicing; embryonic stem cell; glycogen synthase kinase 3 (GSK-3); leukemia; lithium; phosphoproteomics; spliceosome

PMID:
28916722
PMCID:
PMC5672046
DOI:
10.1074/jbc.M117.813527
[Indexed for MEDLINE]
Free PMC Article

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