Backfill related_ingredients in 3 more biocontrol/agri SynCom files (round 3) - #120
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…round 3) Round 3 of the deferred ~38 thin biocontrol/agri backfill. Five more OAK-verified metabolites across three files; all sourced verbatim from already-cited references. - Rice_Duckweed_Bacillus_SynCom → indole-3-acetic acid (CHEBI:16411), acetoin (CHEBI:15688), surfactin (CHEBI:29681). Source: PMID:41736136 (Song 2026) — division-of-labor metabolite suite includes IAA + acetoin for growth promotion and surfactin among the antimicrobial lipopeptides driving R. solani sheath-blight suppression. - Arabidopsis_Phyllosphere_SynCom7 → ethylene (CHEBI:18153 "ethene"). Source: PMID:24743269 (Bodenhausen 2014) — EIN2 ethylene signaling as a host genetic factor modulating phyllosphere community composition. - Desert_Tomato_Salt_Stress_SynCom5 → sodium chloride (CHEBI:26710). Source: PMID:35444261 (Schmitz 2022) — NaCl as the defining abiotic stressor the desert-derived 5-strain SynCom protects tomato against. Adoption: 105 → 108 of 265 (+3 files; +5 metabolites). Co-Authored-By: Claude Opus 4.7 (1M context) <noreply@anthropic.com>
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Sanctioned review pass (replacing Copilot). Reviewed all 71 added lines across 3 SynCom YAMLs: 5 new related_ingredients metabolites. Verified CHEBI ids/labels against local OAK chebi.db, snippet verbatim integrity against cached abstracts, PMID/author/year attributions, and schema conformance (linkml-validate clean). No issues found.
Findings
None. This change is clean.
Verification detail
CHEBI ids/labels (all canonical, OAK-verified):
- CHEBI:18153 =
ethene(preferred_termethyleneis a valid CHEBI exact synonym) — Arabidopsis_Phyllosphere_SynCom7 - CHEBI:26710 =
sodium chloride— Desert_Tomato_Salt_Stress_SynCom5 - CHEBI:16411 =
indole-3-acetic acid, CHEBI:15688 =acetoin, CHEBI:29681 =surfactin— Rice_Duckweed_Bacillus_SynCom
No duplicate/conflicting CHEBI ids for the same compound.
Snippet integrity: all 5 snippets match the cached abstracts verbatim (PMID:24743269, PMID:35444261, PMID:41736136).
Attribution accuracy:
- Bodenhausen et al. 2014 ✓ (PLoS Genet 2014, Bodenhausen N first author)
- Schmitz et al. 2022 ✓ (ISME J 2022, Schmitz L first author)
- Song et al. 2026 ✓ (Microbiome 2026, Song Y first author)
Statement↔evidence alignment: relevance prose stays within snippet support in all 5 cases (auxin=IAA, NaCl=salt stress, acetoin/2,3-butanediol, surfactin antimicrobial → Rhizoctonia solani sheath blight). No overreach.
Schema: uv run linkml-validate reports "No issues found"; supports: SUPPORT and evidence_source: IN_VIVO/IN_VITRO conform.
Findings not anchorable to diff lines
None.
Summary
Round 3 of the deferred ~38 thin biocontrol/agri backfill (continues #118, #119). Five OAK-verified metabolites across three files.
Adoption: 105 → 108 of 265 (+3 files; +5 metabolites).
Test plan
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