diff --git a/kb/communities/Synechococcus_Pseudomonas_PhotoPHA_DNT_Coculture.yaml b/kb/communities/Synechococcus_Pseudomonas_PhotoPHA_DNT_Coculture.yaml index 410288a0..46877a21 100644 --- a/kb/communities/Synechococcus_Pseudomonas_PhotoPHA_DNT_Coculture.yaml +++ b/kb/communities/Synechococcus_Pseudomonas_PhotoPHA_DNT_Coculture.yaml @@ -288,6 +288,39 @@ ecological_interactions: evidence_source: IN_VITRO snippet: exchange of further molecules beyond the unidirectional feeding with sucrose explanation: Supports additional interaction mechanisms beyond the engineered sucrose cross-feeding link. +cultivation_setup: +- cultivation_mode: BATCH + system_type: FLASK + working_volume: 10.0 + working_volume_unit: mL + instrument_detail: >- + 125 mL baffled Erlenmeyer flasks holding roughly 10 mL of alginate-bead suspension in M3 + minimal medium, on a Multitron Pro rotary shaker. The cyanobacterium is encapsulated in + barium-alginate hydrogel rather than free in suspension; that encapsulation is what + shields it from 2,4-DNT toxicity, so it is a property of the setup and not of the strain. + Cells were stepped from 25 to 50 mM NaCl over two days before the final medium. + notes: >- + No operating temperature or light intensity. The paper gives 32 °C and 150 rpm for + Lysogeny broth cultures, and LB is the P. putida preculture medium - the coculture runs + on M3 with light and CO2 as inputs, so those numbers are not the community's (#529). The + incubator model is recorded instead of a temperature invented for it. + + `cultivation_mode` is BATCH: the medium is exchanged between acclimation steps rather + than fed continuously, and no dilution rate is reported. + evidence: + - reference: PMID:32064751 + supports: SUPPORT + evidence_source: IN_VITRO + snippet: the alginate bead suspension were portioned in ~ 10‐ml aliquots into 125‐ml baffled + Erlenmeyer flasks + explanation: The vessel and the working volume the coculture was run in. + - reference: PMID:32064751 + supports: SUPPORT + evidence_source: IN_VITRO + snippet: By encapsulating S. elongatus within a barium-alginate hydrogel, cyanobacterial cells + were protected from the toxic effects of 2,4-DNT, enhancing the performance of the co-culture + explanation: Why the encapsulation belongs in the setup rather than being incidental. + environmental_factors: - name: Light and CO2 value: Illumination with CO2 as primary carbon input