In situ NMR reveals a pH sensor motif in an outer membrane protein that drives bacterial vesicle production

Abstract

The outer membrane vesicles (OMVs) produced by diderm bacteria have important roles in cell envelope homeostasis, secretion, interbacterial communication, and pathogenesis. The facultative intracellular pathogen Salmonella enterica Typhimurium (STm) activates OMV biogenesis inside the acidic vacuoles of host cells by upregulating the expression of the outer membrane (OM) protein PagC, one of the most robustly activated genes in a host environment. Here, we used solid-state nuclear magnetic resonance (NMR) and electron microscopy (EM), with native bacterial OMVs, to demonstrate that three histidines, essential for the OMV biogenic function of PagC, constitute a key pH-sensing motif. The NMR spectra of PagC in OMVs show that they become protonated around pH 6, and His protonation is associated with specific perturbations of select regions of PagC. The use of bacterial OMVs is an essential aspect of this work enabling NMR structural studies in the context of the physiological environment. PagC expression upregulates OMV production in E. coli, replicating its function in STm. Moreover, the presence of PagC drives a striking aggregation of OMVs and increases bacterial cell pellicle formation at acidic pH, pointing to a potential role as an adhesin active in biofilm formation. The data provide experimental evidence for a pH-dependent mechanism of OMV biogenesis and aggregation driven by an outer membrane protein. SignificanceThis work sheds light on the mechanism for extracellular vesicle biogenesis by Gram negative bacteria. It shows that the Salmonella surface protein PagC, a major driver of extracellular vesicle formation, harbors a set of pH-sensitive histidines that become protonated at acidic pH, increasing vesicle production, and promoting bacterial cell aggregation. NMR analysis of PagC in natively secreted bacterial vesicles is introduced as a new important tool for in situ structural analysis of bacterial membrane proteins. The results have important implications for understanding the molecular factors that drive the formation of bacterial extracellular vesicles, their functions in human infection, as well as their roles as vaccine, drug delivery and nanotechnology platforms.