Pyruvate Kinase M (PKM) binds ribosomes in a poly-ADP ribosylation dependent manner to induce translational stalling

Abstract In light of the numerous studies identifying post-transcriptional regulators on the surface of the endoplasmic reticulum (ER), we asked whether there are factors that regulate compartment specific mRNA translation in human cells. Using a proteomic survey of spatially regulated polysome inte...

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Published in:Nucleic acids research 2023-07, Vol.51 (12), p.6461-6478
Main Authors: Kejiou, Nevraj S, Ilan, Lena, Aigner, Stefan, Luo, Enching, Tonn, Tori, Ozadam, Hakan, Lee, Muyoung, Cole, Gregory B, Rabano, Ines, Rajakulendran, Nishani, Yee, Brian A, Najafabadi, Hamed S, Moraes, Trevor F, Angers, Stephane, Yeo, Gene W, Cenik, Can, Palazzo, Alexander F
Format: Article
Language:English
Subjects:
Glutamates - analysis
Glutamates - genetics
Glutamates - metabolism
Humans
Lysine - metabolism
Poly ADP Ribosylation
Protein Biosynthesis
Proteomics
Pyruvate Kinase - analysis
Pyruvate Kinase - genetics
Pyruvate Kinase - metabolism
Ribosomes - metabolism
RNA and RNA-protein complexes
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Summary:Abstract In light of the numerous studies identifying post-transcriptional regulators on the surface of the endoplasmic reticulum (ER), we asked whether there are factors that regulate compartment specific mRNA translation in human cells. Using a proteomic survey of spatially regulated polysome interacting proteins, we identified the glycolytic enzyme Pyruvate Kinase M (PKM) as a cytosolic (i.e. ER-excluded) polysome interactor and investigated how it influences mRNA translation. We discovered that the PKM-polysome interaction is directly regulated by ADP levels–providing a link between carbohydrate metabolism and mRNA translation. By performing enhanced crosslinking immunoprecipitation-sequencing (eCLIP-seq), we found that PKM crosslinks to mRNA sequences that are immediately downstream of regions that encode lysine- and glutamate-enriched tracts. Using ribosome footprint protection sequencing, we found that PKM binding to ribosomes causes translational stalling near lysine and glutamate encoding sequences. Lastly, we observed that PKM recruitment to polysomes is dependent on poly-ADP ribosylation activity (PARylation)—and may depend on co-translational PARylation of lysine and glutamate residues of nascent polypeptide chains. Overall, our study uncovers a novel role for PKM in post-transcriptional gene regulation, linking cellular metabolism and mRNA translation. Graphical Abstract Graphical Abstract
ISSN:0305-1048
1362-4962
DOI:10.1093/nar/gkad440