Tier 0 · open
acid whey -> lactate
SINGLE-ORGANISM
corpus v0.3.0 · hash 3574ed92836e…
Model licensing
This run includes model(s) we cannot re-serve. They are named and cited so you can obtain them directly from the source. Naming a model in a result is not redistribution.
- link-only: Unconfirmed (no repo license file; vmh.life data license not confirmed) -- obtain a license from the source before reuse; source: https://vmh.life/files/reconstructions/AGORA/
The remaining models are openly redistributable (CC-BY + CC0).
Provenanced sample report (Syntropa discovery, role-aware Stage-1). Corpus v0.3.0 (15717 models, fingerprint 3574ed92836e) · tools v0.1.0 (git 38fbc04, code 7965284a0cdb) · env py3.13.13 win32 swiglpk5.0.13+osqp1.1.3+highspy1.15.1+pyscipopt6.2.1+optlang1.9.1 (deps fec80ac6eed5). Feed={'lcts': 10} target=lac__L mode=produce. Report id d3bc6ba99555 (content-addressed to config + EXACT corpus + EXACT tools -> reproducible/auditable). Honest-by-construction: read the caveats.
Verdict: SINGLE-ORGANISM
the target is achieved by a single organism -- no consortium is required.
Super-additivity + honest scope
- Best SINGLE organism reaches 50.959; best CONSORTIUM reaches 50.959 (~1.0x) -- a real multi-member effect.
- The 390 feedstock-dependent candidates are COMBINATIONS over a diverse front-end core and largely SHARE the finisher(s) ['apollo595_panblautia_hansenii', 'apollo595_panlactobacillus_delbrueckii', 'apollo595_panstreptococcus_agalactiae'] -- they are variations on a small number of core relays, NOT 390 independent discoveries. The biological finding is the finisher + its best partners, not the raw count.
Ranked feedstock-dependent candidates (top 10 of 390)
| rank | n | production | emergence | members |
|---|---|---|---|---|
| 1 | 1 | 50.959 | additive | apollo595_panstreptococcus_gordonii (APOLLO-595/draft) |
| 2 | 1 | 49.041 | additive | apollo595_panlactobacillus_delbrueckii (APOLLO-595/draft) |
| 3 | 1 | 48.419 | additive | apollo595_panstreptococcus_sanguinis (APOLLO-595/draft) |
| 4 | 1 | 48.202 | additive | apollo595_panblautia_hansenii (APOLLO-595/draft) |
| 5 | 1 | 46.673 | additive | apollo595_panstreptococcus_agalactiae (APOLLO-595/draft) |
| 6 | 1 | 44.256 | additive | cme_gcf000306785 (CarveMe 1.6.6 reconstruction from NCBI RefSeq proteome/draft) |
| 7 | 1 | 44.249 | additive | cme_gcf010367585 (CarveMe 1.6.6 reconstruction from NCBI RefSeq proteome/draft) |
| 8 | 1 | 44.162 | additive | cme_gcf003014485 (CarveMe 1.6.6 reconstruction from NCBI RefSeq proteome/draft) |
| 9 | 1 | 43.757 | additive | cme_gcf024734405 (CarveMe 1.6.6 reconstruction from NCBI RefSeq proteome/draft) |
| 10 | 2 | 43.508 | additive | agora_bacteroides_cellulosilytic (AGORA v1.03 (Magnusdottir 2017)/semi-curated) + apollo595_panblautia_hansenii (APOLLO-595/draft) |
Attribution
Every model above is credited by id + source. Model authors: your reconstruction appears in this result. (Impact-ledger stamping = flywheel, pending.)
Caveats (disclosed up front)
- FBA proves a route is stoichiometrically POSSIBLE, not that a living cell will do it.
- Every consortium here is a HYPOTHESIS until cultured; nothing is wet-lab validated.
- Feedstock-dependence is the anti-medium-artifact control: withdraw the feed and the product must collapse (a NOT-feedstock-dependent result is flagged SUSPECT, not a discovery).
- The ranking score is a documented heuristic for human review, not a truth or biology claim.
- Stage-1 selects finisher x diverse front-ends; multi-finisher relays are out of scope. Stage-2 expansion of winners is pending -- these are PRELIMINARY until it runs.