diff --git a/kb/communities/Cheese_Rind_InSitu_InVitro_Model_Community.yaml b/kb/communities/Cheese_Rind_InSitu_InVitro_Model_Community.yaml index f19a8c89..fd9329a0 100644 --- a/kb/communities/Cheese_Rind_InSitu_InVitro_Model_Community.yaml +++ b/kb/communities/Cheese_Rind_InSitu_InVitro_Model_Community.yaml @@ -181,6 +181,43 @@ ecological_interactions: evidence_source: IN_VITRO snippet: succession in vitro was highly reproducible amongst replicates explanation: Supports reproducible temporal assembly in the reconstructed natural-rind community. +cultivation_setup: +- cultivation_mode: BATCH + system_type: OTHER + instrument_detail: >- + The in vitro arm. Communities reconstructed on cheese curd agar, inoculated with roughly + equal numbers of each member and followed over time; growth monitored by removing agar + plugs from 96-well plates, homogenising in PBS and counting CFUs. Plates at room + temperature. + notes: >- + `system_type` is OTHER because an agar-plug community in a 96-well plate has no enum + value, and FLASK or any reactor type would assert a liquid culture this is not. The + format is in instrument_detail instead. + + No operating_temperature: the source says "room temperature" rather than a figure, and + turning that into 20 or 25 °C would invent precision the paper declined to give. + + This record covers an in situ survey as well as this in vitro reconstruction, and only + the reconstruction is a cultivation. The in situ side is sampled cheese rind - the same + distinction that made Avena_Rhizosphere unenrichable (#543), except that here the paper + supplies both and only one of them belongs in this slot. + + The medium is the point rather than a detail: cheese curd agar is what makes the in vitro + system recapitulate the in situ succession, which is the paper's central claim. + evidence: + - reference: PMID:25036636 + supports: SUPPORT + evidence_source: IN_VITRO + snippet: We inoculated approximately equal numbers of each together onto cheese curd agar and + followed membership of the in vitro rind communities over time + explanation: The medium and the equal-inoculum design of the reconstructed community. + - reference: PMID:25036636 + supports: SUPPORT + evidence_source: IN_VITRO + snippet: Plates were incubated at room temperature, and after colony and foci formation, CFUs + of each strain were counted + explanation: Incubation temperature as stated, and how the community was followed. + environmental_factors: - name: rind moisture value: natural-rind treatment drier than undried plates