Proximity labeling puts ZFP36L1 as central hub for posttranscriptional regulation networks in T cells

Abstract

RNA binding proteins (RBPs) are key regulators of controlling the proteome remodeling during T-cell activation. Using proximity labeling, we present a comprehensive interactome map of the RBP ZFP36L1, demonstrating the versatility of interactions and their possible functioning during T-cell activation. Effective T cell responses against pathogens require a rapid yet tightly controlled remodeling of the proteome, and RNA binding proteins (RBPs) are key in this process. For instance, the RBP ZFP36L1 prevents excessive protein production and thereby limits immunopathology. ZFP36L1 is primarily known to mediate mRNA decay, but it can also regulate other processes. How its mode of action relates to its interaction partners is, however, not well-understood. Here, we mapped the ZFP36L1 interactome in primary human T cells. Using proximity labeling, we identified known and new interactors that regulate 3′UTR-mediated RNA degradation, deadenylation, stress granule/p-body formation, as well as 5′UTR-mediated translation repression and mRNA decapping. Snapshot analysis uncovered the ZFP36L1 interactome dynamics and RNA (in)dependency throughout T cell activation. Intriguingly, proximity labeling also uncovered regulators of ZFP36L1 protein expression. This included the helicase UPF1, which not only interacts with ZFP36L1 protein but that may also promote its protein expression. Altogether, this comprehensive interactome map underlines the versatility of interactions with ZFP36L1 and their possible role in cellular function.