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
DVM graph: separate conditional substrate supply, methane pathways and sulfate competition #1530
DVM_Triculture.yaml (CommunityMech:000021) retains four nodes and two substrate-supply arrows, but needs exact-system and conditional-mechanism repair.
The 2019 primary study distinguishes no-added-sulfate, 7.5 mM and 15 mM sulfate treatments. Lactate conversion and enhanced tri-culture methane production are supported; complete acetate utilization is not. H2-pressure perturbations in Mb monocultures and mass balances in Dv-Mb pairs support H2 co-utilization, but do not resolve pathway shares in the tri-culture. Carbon dioxide and some initial hydrogen are also present in culture headspace, so exclusive donor origin is not established. The older 1981 pair experiments cannot substitute for exact 2019 tri-culture measurements. Preserve observed positive effects, distinguish co-/tri-/monoculture assays and bound competition and pathway inference. Do not add new causal structure during this repair.
Acceptance: review every original node and arrow against the whole record and primary Methods/Results; preserve canonical taxonomy; use source-context evidence and exact discussion anchors; retain append-only curation history, focused regression tests, full gates, regenerated pages and committed output/review records. Keep this repair issue open until protected-main merge. Existing #1364 tracks non-graph protocol/metadata and remains unresolved separately.
Primary: https://pmc.ncbi.nlm.nih.gov/articles/PMC6544901/ (Results2.1-2.4, Discussion, Methods4.1-4.8, Tables1-2, main captions read; no original images, supplements or raw-data audit). PMID16345708 cached abstract only.
Dedup: 833 all-state issue titles/bodies searched, 14 matching ignored/hidden-inclusive local files (excluding generated docs/site and separately inspected reference caches). Relevant #1364, #1398-1400 and #496 inspected; not every historical comment or PR. Self-adversarial review is not independent approval.
Addressed in #1531 at 762a708; exact-head self-review:#1531 (review). 531 passed in 203.79s (0:03:23); post-commit docs-current passed. Every-node/arrow decisions and actual output digests committed with explicit primary-source limits. Not independent approval. Close only after protected-main merge.
Activity
realmarcin commentedon Oct 6, 2026
Addressed in #1531 at 762a708; exact-head self-review:#1531 (review). 531 passed in 203.79s (0:03:23); post-commit docs-current passed. Every-node/arrow decisions and actual output digests committed with explicit primary-source limits. Not independent approval. Close only after protected-main merge.