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Proteome-Wide Identification of RNA-Dependent Proteins: An Emerging Role for RNAs in Plasmodium falciparum Protein Complexes

ABSTRACT: Ribonucleoprotein complexes are composed of RNA, RNA-dependent proteins (RDPs) and RNA-binding proteins (RBPs), and play fundamental roles in RNA regulation. However, in the human malaria parasite, Plasmodium falciparum, identification and characterization of these proteins are particularly limited. In this study, we use an unbiased proteome-wide approach, called R-DeeP, a method based on sucrose density gradient ultracentrifugation, to identify RDPs. Quantitative analysis by mass spectrometry identified 785 RDPs, including 463 proteins newly associated with RNA. Results were further validated using a combination of computational, cellular, and genetic assays. Overall, this method provides the first snapshot of the Plasmodium protein-protein network in the presence and absence of RNA. R-DeeP also helps to reconstruct Plasmodium multiprotein complexes based on co-segregation and deciphers their RNA dependence.

INSTRUMENT(S): LTQ Orbitrap Elite

ORGANISM(S): Plasmodium Falciparum Nf54 (ncbitaxon:5843)

SUBMITTER: Karine Le Roch

PROVIDER: MSV000091565 | MassIVE | Mon Mar 27 15:47:00 BST 2023

REPOSITORIES: MassIVE

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