You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
{{ message }}
Repository navigation
Bound cellulose-methane formate use and product-removal feedback #1326
Record: kb/communities/Clostridium_Cellulovorans_Methanosarcina_Cellulose_Methane_Coculture.yaml (CommunityMech:000174). Reviewed at db05129c5f8a9fb47b6ed716405dce1be845a207 against PMID:28191038, full primary main body.
The existing graph omits important constraints: M. barkeri did not grow with formate alone after nine months; a mixed-substrate monoculture consumed only a small fraction of supplied formate; the substantial formate/acetate depletion is coculture-specific. Gas/product measurements and RT-qPCR support the authors' conceptual pathways, not direct tracing of each substrate's electron contribution.
The feedback arrow/node also present VFA depletion as a unique mediator of pH stabilization and improved cellulose degradation. The paper reports both substrate consumption and a changed fermenter production pattern. Butyrate/lactate were lower but not net-depleted; improved cellulose degradation did not significantly increase C. cellulovorans cell density or growth yield. MUTUALISM overstates reciprocal measured fitness.
Acceptance
Retain measured cellulose-to-methane conversion, substrate depletion and both existing arrows with appropriate certainty.
Bound formate use to the tested conditions, preserve negative and mixed-substrate controls, and distinguish conceptual pathways from resolved flux.
Explain the M. barkeri-to-fermenter direction as product-removal feedback, not reverse substrate donation.
Qualify pH/product-removal mediation, preserve changed fermentation and unchanged fermenter growth, remove categorical mutualism, add a gap/tests/history.
Whole record, primary Background/Methods/Results/Discussion/Conclusions, main table and six main figure captions read. No visual image/supplement inspection claimed. Dedup: all 665 issue titles/bodies plus ignored/hidden local review/history/research/test files. #965 is a different methane-panel acetate-exchange issue.
Addressed by #1328 at 3619c52dbd64fccba58dfcd1a3815d6d3685411c. Exact-head source-based self-adversarial review: #1328 (review). All 30 local gates pass (247 regressions; 79 MATCH snippets; three rights tests; deterministic renders and actual post-commit docs-current). See committed batch-19 decision/adversarial/validation artifacts for source bounds and node/arrow accounting. Kept open until protected main merge; #1327 is a separate unresolved non-graph follow-up.
Activity
realmarcin commentedon Oct 5, 2026
Addressed by #1328 at
3619c52dbd64fccba58dfcd1a3815d6d3685411c. Exact-head source-based self-adversarial review: #1328 (review). All 30 local gates pass (247 regressions; 79 MATCH snippets; three rights tests; deterministic renders and actual post-commit docs-current). See committed batch-19 decision/adversarial/validation artifacts for source bounds and node/arrow accounting. Kept open until protected main merge; #1327 is a separate unresolved non-graph follow-up.