Wilczek, M. P. | Search bioRxiv

bioRxiv2026

Convergent Cysteine Enrichment in Diverse Gut Phage Capsids Suggests Gut-Associated Structural Adaptation

BackgroundThe gut environment is hostile to life, yet the human virome, dominated by bacteriophages, persists. Adaptations to the major capsid protein (MCP) may explain this. Phage MCPs conserve the HK97 fold, ideal for detecting convergent features across phage populations. Prior capsid stability research focused on individual phages, limiting broader pattern identification. MethodsMCPs from the Gut Phage Database (GPD) (n=8,478) and INPHARED (n=4,905) were predicted using ProtPhage + Phold and clustered using MMseqs2 (GPD=902 vs INPHARED=606). Structural predictions, conservation analysis, and capsomere modeling were used to characterize cysteine environments. ResultsBioinformatics analysis identified cysteine enrichment in GPD MCPs. Phylogenetic mapping was consistent with convergent evolution of high-cysteine MCPs. Over 50% of cysteines were [≥]90% conserved within and between clusters. Simulated capsomeres showed 83% of cysteines are buried (RSA <10%). ConclusionsThese findings suggest gut phages may have convergently evolved cysteine-based capsid stabilization, with implications for engineering therapeutic phages.

bioinformatics↗

bioRxiv2024

Antimicrobial cetylpyridinium chloride suppresses mast cell function by targeting tyrosine phosphorylation of Syk kinase

Cetylpyridinium chloride (CPC) is a quaternary ammonium antimicrobial used in numerous personal care products, human food, cosmetic products, and cleaning solutions. Yet, there is minimal published data on CPC effects on eukaryotes, immune signaling, and human health. Previously, we showed that low-micromolar CPC inhibits rat mast cell function by inhibiting antigen (Ag)-stimulated Ca2+ mobilization, microtubule polymerization, and degranulation. In this study, we extend the findings to human mast cells (LAD2) and present data indicating that CPCs mechanism of action centers on its positively-charged quaternary nitrogen in its pyridinium headgroup. CPCs inhibitory effect is independent of signaling platform receptor architecture. Tyrosine phosphorylation events are a trigger of Ca2+ mobilization necessary for degranulation. CPC inhibits global tyrosine phosphorylation in Ag-stimulated mast cells. Specifically, CPC inhibits tyrosine phosphorylation of specific key players Syk kinase and LAT, a substrate of Syk. In contrast, CPC does not affect Lyn kinase phosphorylation. Thus, CPCs root mechanism is electrostatic disruption of particular tyrosine phosphorylation events essential for signaling. This work outlines the biochemical mechanisms underlying the effects of CPC on immune signaling and allows the prediction of CPC effects on cell types, like T cells, that share similar signaling elements.

pharmacology and toxicology↗