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Coscinodiscus graph: retain supplementation outcomes without inventing metabolite transfer #1357

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@realmarcin

CommunityMech:000020, Coscinodiscus_Synthetic_Community.yaml. PMID:36300970, doi:10.1128/aem.01619-22. Complete main article text, tables and captions reviewed in the public publisher-provided preview at https://www.researchgate.net/publication/364814644_Dynamic_Diatom-Bacteria_Consortia_in_Synthetic_Plankton_Communities (ASM attribution displayed). No supplementary files or figure images inspected.

The graph asserts measured DMSP exchange from genomic potential, specific auxotrophic rescue and diatom donation from broader nutrient responses, and universal MUTUALISM/COMMENSALISM/COMPETITION signs. Crucially, there ARE supplementation assays: pooled amino acids plus vitamins improved Rose1, Crocei1 and CS1 growth, with no CS4 response; carbon-only DMSP/glucose did not promote growth. Do not replace real experiments with a genome-only account.

Acceptance: retain five nodes/two qualified arrows; distinguish BLASTP potential from DMSP flux, pooled supplementation from individual B12/B3 rescue, and Crocei1 growth promotion from the neutral CS4/Rose1 and suppressed CS1 bacterial outcomes. Preserve partner-specific algal responses, phase-specific generalized Lotka-Volterra fit (days 1-17 and 17-41), and tested community inhibition without universal absence of higher-order interactions. Remove cob(I)alamin as an unsupported exact vitamin form. Add gap/history/tests/page.

Three short Results excerpts will be primary-source verified but absent from the abstract-only cache. Report that retrieval limit explicitly under existing #596, without copying a full copyrighted body or promoting curated excerpts to independent cache text.

Dedup: 691 all-state issue titles/bodies plus hidden/ignored-inclusive local reports/history/research/tests searched. No exact finding in that scope; comments not exhaustively searched. Source-based self-adversarial review, not independent approval.

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  1. realmarcin commented on Oct 6, 2026

    @realmarcin
    ContributorAuthor

    Addressed in #1361 at 5f7e0faecd6486addf38d462234f7cb6067d29a4. Exact-head self-adversarial review: #1361 (review). 293 passed in 187.32s (0:03:07); 3 passed in 1.93s; 46 MATCH and 3 documented abstract-cache MISMATCH snippets; 27 unchanged raw blocks and eight tracked caches byte-preserved. Actual post-commit docs-current passed. One reference command retains its exit-1 diagnosis for three primary-verified Results quotes absent from the abstract-only cache; not a passed reference gate. See committed batch25 reports. Remains open until protected main merge; not independent approval.

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