An enrichment is by definition grown (#183, #543) - #546
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Acetylene_Fueled_TCE_Dechlorination_Groundwater_Enrichment: gastight 60 mL serum bottles under 100% N2 holding 20 mL of a 1:1 groundwater/medium mixture, dosed with 0.05 or 0.1 mL acetylene and re-amended once it fell below detection. Acetylene is in the setup rather than only among the environmental factors because it is the selective pressure that makes this an enrichment — sole electron donor and sole organic carbon source, so the community is defined by what grows on it. Same reasoning as the TCE/acetylene coculture record. A second bottle format appears in the paper, 160 mL with 100 mL liquid, but only in table captions giving concentrations per bottle rather than in the setup narrative, so the 60 mL microcosm is what is recorded. This confirms the first of the three "likely curatable" predictions in #543. An enrichment is grown by definition, and the source describes establishing and feeding the culture rather than sampling it — which is exactly the contrast with the two records refused there, where the paper described growing the members and never the community. Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>
Network integrity findingsWarnings only — a member with no interaction yet, or a participant matched by ontology id rather than by name, or one on a community-level interaction that resolves to no member. Reported, but does not fail the build. The full report is attached to the workflow run as an artifact. |
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What
Acetylene_Fueled_TCE_Dechlorination_Groundwater_Enrichment— gastight 60 mL serum bottles under a 100% N₂ headspace holding 20 mL of a 1:1 groundwater/medium mixture, dosed with 0.05 or 0.1 mL of acetylene and re-amended once it fell below detection.Acetylene is in the setup, not just the environment
It is the selective pressure that makes this an enrichment — sole electron donor and sole organic carbon source. The community is defined by what grows on it. Recording it only as an environmental factor would describe a community that happened to encounter acetylene, rather than one that exists because of it.
Same reasoning as the TCE/acetylene coculture in #541.
One ambiguity resolved rather than averaged
A second bottle format appears in the paper — 160 mL bottles with 100 mL liquid — but only in table captions giving concentrations per bottle, not in the setup narrative. The 60 mL microcosm is what the methods describe establishing, so that is what is recorded, with the discrepancy noted rather than silently picked.
Confirms the first #543 prediction
#543 predicted three of the remaining ten full-text candidates as "likely curatable", starting with this one, on the grounds that an enrichment is grown by definition. That holds: the source describes establishing and feeding the culture, not sampling it.
Which is exactly the contrast with the two records refused there —
Avena_RhizosphereandOMM12— where the paper described growing the members and never the community.Checks
just validate— no issuesjust validate-references— 0 issues; both snippets verbatimjust validate-strict,just lint,just check-docs-current— exit 0uv run pytest tests/— 2375 passed, 16 skippedPart of #183. Advances #543.
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