nx_microbiome.nx

nx_microbiome.nx -- loose colony of cells with collective function. Per [[feedback-unified-immune-architecture-three-tier]] table row: "soil microbial community / gut+skin+oral microbiome." THE third- tier ecosystem primitive that bridges digital substrate, land stewardship, and human-health domains under a single biology-honest abstraction. DIFFERENT from nx_organism: organism is a single multi-pathway entity with tight coordination. Microbiome is a LOOSE COLLECTION of independent organisms (or cells) that work together statistically without central coordination -- like the gut microbiome's hundreds of bacterial species, or the soil microbiome's thousands. THE DIVERSITY INSIGHT: a healthy microbiome has many distinct cell kinds; a stressed/diseased one is dominated by one or two opportu- nists. Substrate measures kind-diversity as a health metric -- >=4 distinct cell kinds = HEALTHY; 1-3 = STRESSED; 0 distinct = COLLAPSED (sterile). Composes: nx_cell -- microbiome holds many cell pointers nx_organism -- distinct sibling primitive at a different scale nx_immune -- colony-level immune monitors microbiome health nx_aerobic -- stagnant microbiome = anaerobic decomposition trigger nx_attention_class -- diverse attention classes in microbiome = healthy "ecology" of work V1 ships: - struct NxMicrobiome with cells ring (cell pointers + kind tags) - add_cell / remove_cell / find_cell - kind_diversity (count of distinct attention classes present) - health verdict (sealed: HEALTHY / STRESSED / COLLAPSED) Gap list (V1 honest perf verdict): - kind = attention_class in V1; V2 may add per-cell taxonomic tag - no per-cell weight (Shannon entropy ignored; just count distinct) - no temporal-trend tracking (V2 adds rolling-window health)