diff --git a/kb/communities/Suillus_Bacillus_Thiamine_Ectomycorrhizal_SynCom.yaml b/kb/communities/Suillus_Bacillus_Thiamine_Ectomycorrhizal_SynCom.yaml index 039bdc62..b9410b62 100644 --- a/kb/communities/Suillus_Bacillus_Thiamine_Ectomycorrhizal_SynCom.yaml +++ b/kb/communities/Suillus_Bacillus_Thiamine_Ectomycorrhizal_SynCom.yaml @@ -326,6 +326,43 @@ growth_media: at 28°C in the dark explanation: Plate format, plug size, temperature and light regime for the assay. +cultivation_setup: +- cultivation_mode: BATCH + operating_temperature: 28.0 + operating_temperature_unit: °C + instrument_detail: >- + The fungus as an 8 mm plug and B. altitudinis B4 at 50 μL of OD600 0.4, co-cultured in + P20 liquid medium made without thiamine, alongside single-partner treatments as controls. + Plate work ran at 28 °C in the dark. + notes: >- + The medium is the experiment. P20 without thiamine is what makes S. clintonianus - a + thiamine auxotroph - dependent on the bacterium, so recording the medium without the + omission would describe a system in which the interaction cannot be observed. This is the + same shape as the fumarate deliberately excluded from the syntrophy record: a single + component decides whether the partnership is necessary. + + No `system_type` or `working_volume`: the source gives neither for the co-culture, and + both the liquid co-culture and the 60 mm plate assays appear, so one vessel value would + misdescribe half the work. + + Predicted a likely refusal in #543 on the assumption that a plant-associated SynCom lives + on the plant. Wrong again, and differently: the two partners are co-cultured in liquid, + with the plant absent. Second of the five in that group to fail, which is why the + remaining three are not being classified without reading. + evidence: + - reference: PMID:41454778 + supports: SUPPORT + evidence_source: IN_VITRO + snippet: clintonianus (8 mm) and B. altitudinis B4 (50 μL, OD600 = 0.4) were co-cultured in + P20 liquid medium (without thiamine) + explanation: The two members were grown together, in a medium lacking the vitamin at issue. + - reference: PMID:41454778 + supports: SUPPORT + evidence_source: IN_VITRO + snippet: Fungal plugs (8 mm) were placed in the center of the plate (60 mm) and incubated at + 28°C in the dark + explanation: Temperature and light regime for the plate assays. + environmental_factors: - name: Thiamine limitation of the fungal partner value: fungus cannot effectively obtain or synthesize thiamine