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Bound TYQ1 biofilm and cross-feeding mediation to the actual assays #1923

Description

@realmarcin

Finding

CommunityMech:000072 incorrectly says all seven partners attract TYQ1: SX is the explicit exception. All seven pairings enhance biofilm, but that does not establish mutual fitness benefit. TSB supplementation and M9 filtrate tests differ: rich-medium partner supernatants do not enhance TYQ1; TYQ1 uses all seven filtrates in M9 while AS is the exception to the reverse result. Preserve real cross-feeding, strain-omission and diversity-gradient suppression evidence. Distinguish in-silico Gephi node removal from biological strain omission. Qualify recruitment-to-assay and biofilm/exchange-to-suppression mediation; strain omission does not isolate the exchange or biofilm mechanism.

Evidence And Limits

https://pmc.ncbi.nlm.nih.gov/articles/PMC12954386/

Whole canonical records and all five primary main-body XML texts read, including methods, results, discussions, table text and captions. No original figure-pixel, separate supplement, raw-data or analysis-code audit. Reusable-taxon ID search and local issue searches included hidden/ignored files, excluding credentials and unrelated generated/cache content in the issue search. All-state issue titles/bodies checked; not all historical PR comments.

Lifecycle

Address in batch119; close only after protected-main merge. Self-adversarial review is not independent approval.

Activity

  1. realmarcin commented on Oct 8, 2026

    @realmarcin
    ContributorAuthor

    Graph repair addressed; close only after protected-main merge. #1930 at 0c53674; self-review #1930 (review). 1116 passed in 319.85s (0:05:19); postcommit docs-current passed. Four append-only histories, 41 validation outputs and twelve mutation probes recorded. No new topology or Edison invocation in this batch; prior research extensions remain incomplete. Self-review is not independent approval.

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