A synthetic community assay system for probing chemically mediated microbial interactions through shared exometabolites.
Taxonomy
| Taxon | Ontology ID | Functional Roles | Abundance |
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| Chromobacterium subtsugae Cv017 — ontology label: Chromobacterium subtsugae | NCBITaxon:251747 · TaxonMech · TraitMech | N/A | |
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| Chromobacterium subtsugae Cv026 — ontology label: Chromobacterium subtsugae | NCBITaxon:251747 · TaxonMech · TraitMech | N/A | |
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| Chromobacterium subtsugae SC11,378 (ATCC 31532) — ontology label: Chromobacterium subtsugae | NCBITaxon:251747 · TaxonMech · TraitMech | N/A | |
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| Burkholderia thailandensis E264 | NCBITaxon:271848 · TaxonMech · TraitMech | N/A | |
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| Pseudomonas syringae DC3000 — ontology label: Pseudomonas syringae pv. tomato str. DC3000 | NCBITaxon:223283 · TaxonMech · TraitMech | N/A | |
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Ecological Interactions
The graph shows only explicitly linked interaction participants. Community members without an asserted participant link are omitted; membership alone does not imply an interaction.
AHL Diffusion and Violacein Induction
In the two-strain reporter demonstration, AHL-producing Cv017 induced violacein and vioC transcription in physically separated Cv026 through the shared reservoir. Replated Cv026 returned to a nonpigmented phenotype, supporting signal-dependent response rather than contamination or a stable pigmented mutant. This supports diffusible signaling in this assay, not a quantified signal dose, all extracellular enzyme classes or causation of the separate three-member metabolomics phenotype. Cv017 and Cv026 are separately identified derivatives of the ATCC 31532 lineage, now classified as C. subtsugae; the source called them C. violaceum. Their shared species CURIE does not make this a strain self-interaction.
Source Taxon: Chromobacterium subtsugae Cv017
Target Taxon: Chromobacterium subtsugae Cv026
Metabolites: N-acyl-L-homoserine lactone (CHEBI:55474 · MediaIngredientMech · CMMMech)
Biological Processes:
- quorum sensing (GO:0009372 · PathwayMech)
Evidence
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PMID:29152587 - SUPPORT (IN_VITRO)"AHLs from Cv017 diffused through wells to induce quorum sensing and violacein production in Cv026"
Three-Member Exometabolite Time Series
The separate B. thailandensis E264, source-labeled C. violaceum and P. syringae DC3000 stationary-phase assay showed time-varying nonpolar mass features over 15-35 hours. The 977 features are not 977 identified metabolites, and changes do not resolve producer-consumer flux. Bactobolin was identified separately by polar HILIC-MS/MS; its accumulation does not selectively establish the cause of lower P. syringae live-cell counts in B. thailandensis-containing cultures. No bactobolin-to-inhibition or AHL-to-metabolomics arrow is asserted. Participants follow Table 1: SC11,378/ATCC 31532 (now C. subtsugae), E264 and DC3000. The Results spelling SC11,368 remains unresolved, so the wild-type assignment is table-based rather than independently stock-verified. Cv017/Cv026 do not participate in this separate assay. A new antagonism node remains pending under #1467.
Participating Taxa: Chromobacterium subtsugae SC11,378 (ATCC 31532), Burkholderia thailandensis E264, Pseudomonas syringae DC3000
Metabolites: antibacterial agent (CHEBI:33282 · MediaIngredientMech · CMMMech)
Evidence
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PMID:29152587 - SUPPORT (IN_VITRO)"We observed both decreases in existing features (clusters A and B) and production of new features over time (clusters D, E, and F)"
Knowledge gaps & discussions (1)
KNOWLEDGE_GAP OPEN Which strain-resolved antagonism belongs alongside the separate Transwell demonstrations?
The two demonstrations remain separate. The roster now names the Cv017/Cv026 reporter pair and the Table 1 wild-type SC11,378/ATCC 31532, E264 and DC3000 members of the three-member series. Current NCBI names and PMID:33159606 support C. subtsugae for the ATCC 31532 lineage; source C. violaceum terminology is retained in evidence and notes. SC11,368 in Results versus SC11,378 in Table 1 is not resolved; use the table-defined identity provisionally, not as independent experimental-stock verification. No new antagonism node or downstream arrow is added. Lower P. syringae live-cell counts with B. thailandensis do not selectively establish bactobolin mediation. New structure requires the separate Edison extension workflow; no provider job or spend occurred in this correction. Issue #1467 remains open and the graph remains needs_research. Cultivation metadata still conflates test tubes with Transwell plates and distinct assay media; these preserved fields are not certified. Main scientific bodies, Table 1 and captions read, not independent figure images, separate supplements or raw spectra.
Attaches to: ecological_interactions#AHL Diffusion and Violacein Induction, ecological_interactions#Three-Member Exometabolite Time Series
Environmental Factors
| Factor | Value | Unit |
|---|---|---|
| defined synthetic community design | Synthetic community members are cultured in a filter plate system that separates cells while allowing chemical exchange through shared medium. | N/A |
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Growth Media
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