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Separate BsBv fermentation outcomes and modeled mediation from mutualism and niche partitioning #1843

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Description

@realmarcin

Finding

CommunityMech:000278, doi:10.1016/j.indcrop.2025.122621. Preserve measured macromolecule loss, bacterial community shifts and volatile/sensory outcomes. These do not establish reciprocal microbial benefit or ecological niche separation. Keep the two existing outcome-contribution hypotheses qualified rather than treating co-occurrence or PLS-PM inference as experimentally isolated mediation. Distinguish relative-abundance changes, beta-diversity and sensory outcomes from proof that Bacillus enrichment specifically drives each volatile. Add bounded statistical provenance without inventing a software package or version; remove degradation-process annotations from the volatile/sensory endpoint.

Primary Source And Review Scope

https://www.sciencedirect.com/science/article/pii/S0926669025021685
Four whole records and their existing graph evidence were read. Source coverage is indexed publisher abstracts/previews, plus the independently retrieved Chlorella EuropePMC abstract. The MetG2 Introduction and bounded section previews were read, not the full article. Direct publisher requests returned HTTP403; the public Crossref-advertised API links for the two CC-licensed articles returned HTTP400. No access bypass, whole-paper/supplement/figure-pixel certification or raw-data reanalysis.

All four matching issue bodies were read. Fresh all-state title/body dedup and scoped ignored/hidden local searches found no duplicate of this finding; PRs/comments were not exhaustively searched. Existing #1091/#1093 concern cache infrastructure, #184 scouting dedup, and #183 has a separate membership/access scope.

Lifecycle

Address in the dependent batch108 PR; close only after protected-main merge. Self-adversarial review is not independent approval. No new topology or provider spend.

Activity

  1. realmarcin commented on Oct 8, 2026

    @realmarcin
    ContributorAuthor

    Addressed in #1848 at 5c3a892; self-review: #1848 (review). 975 passed in 301.81s (0:05:01); postcommit docs-current passed. 41 gate outputs/digests, decisions, provenance and four append-only histories committed. Twelve nodes/three qualified existing directions retained; two workflow nodes/four context or coincidence arrows removed. All 22 reviewed quotations match independent primary abstracts/previews and unchanged caches. Three in-memory claim-inflation probes were rejected by the scientific regressions. Plain just-lint passed;explicit-runtime no-incremental mypy additionally checked. Identity #1847 and membership #183 remain open; MetG2 stays needs_research. Not independent approval; close only after protected-main merge.

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