Four-Species Aerobic Lung Microbiome Model

KNOWLEDGE_GAP OPEN Which observed phenotypes and proposed mechanisms belong in the four-species causal graph?

The openly available primary main body (PMID:42545019; PMC13595950) now supports source review beyond the abstract. The record still has no interaction nodes and remains needs_research under #1461. Day-10 vPCR persistence, total CFU, DNA-qPCR and protein fractions are distinct readouts. P. koreensis-containing bicultures alkalinize, and community pH recovers after acid perturbation, but total CFU does not resolve member-specific compositional resilience. Siderophore uptake, partner-resolved acid/pyruvate exchange, ammonia mediation and AI-2 coordination require hypothesis-qualified treatment, not inferred flux or selective causality from proteins alone. Predicted antimicrobial pathways produced no inhibition zones in the tested agar assay, not proof of universal absence. Nutrient-rich BHI and pH 9-10 are not physiological healthy-airway conditions. Challenge organisms are not members of the canonical four-species record. One-community Edison dry run completed; specific credit authorization requested and no provider job or spend made. Add no speculative nodes or arrows while research is pending. Source body, tables and captions read; figure images, supplements and raw data not inspected. Strain and model metadata remain #1463.