Our MS-based proteome analysis of AD brains and retinas further supports these findings, identifying dysregulated Chlamydia interactome proteins alongside dysregulated proteins involved in related immune response pathways, including response to gram-negative bacterial infection, NLRP3 inflammasome components, pyroptosis, apoptosis, and microglial pathogen phagocytosis. Here, NLRP3 is linked to gram-negative bacterial infections.