Operational assay

TEM-EDS localization assay for intracellular Bi in Fusarium sp. BI

AssayMech:fusarium-intracellular-bi-tem-eds

Bioaccumulation

Use thin-section TEM with energy-dispersive X-ray spectroscopy to assess intracellular Bi localization in Fusarium sp. BI exposed to bismuth subsalicylate.

Download source YAML · View source at this revision

Scoped operational assay. Consult the sourced method, controls and limitations; missing protocol details remain explicit research gaps.

Record evidence

Metabolism of Bismuth Subsalicylate and Intracellular Accumulation of Bismuth by Fusarium sp. Strain BI — Primary methods prepare washed 96-hour biomass from bismuth-subsalicylate and salicylate cultures for TEM-EDS of 60 nm sections.

Source reference · html:#sec7 · Source licence: Not recorded for this source
Metabolism of Bismuth Subsalicylate and Intracellular Accumulation of Bismuth by Fusarium sp. Strain BI — The localization analysis compares intracellular granules with the salicylate control and warns that the EDS beam samples surrounding material.

Source reference · html:#sec15 · Source licence: Not recorded for this source

Interpretation and limitations

This is qualitative spatial localization, not bulk biomass uptake capacity, uptake rate, or whole-feed recovery.
The EDS beam is larger than the granules; the spectrum includes adjacent cellular material.
Element co-localization does not establish a unique Bi-polyphosphate molecular structure, crystalline phase, oxidation state or transport route.
The experiment concerns the unresolved Fusarium sp. BI isolate and defined laboratory feed; no other strain, ore or industrial process is implied.

Ontology groundings

Assay identity, measured phenotype and tested predicate are distinct relations. A property grounding does not turn that property into an assay identity.

accumulates · METPO:2000210

Tests predicate · Entity type: Object property

Ontology source: metpo.json
Exact source revision: 800c9d27913158efdf466edf2cd710dbf1ce893f

METPO ontology at commit 800c9d27913158efdf466edf2cd710dbf1ce893f — METPO accumulates is an object property; intracellular localization provides scoped evidence relevant to accumulation, not an ontology assay identity.

Source reference · /graphs/0/nodes/1530 · Source licence: CC-BY-4.0

Method summary

Wash and prepare 96-hour biomass grown with 1.5 mM bismuth subsalicylate or 1.5 mM salicylate; examine approximately 60 nm sections by TEM and obtain EDS spectra from selected intracellular regions.

Metabolism of Bismuth Subsalicylate and Intracellular Accumulation of Bismuth by Fusarium sp. Strain BI — Primary methods prepare washed 96-hour biomass from bismuth-subsalicylate and salicylate cultures for TEM-EDS of 60 nm sections.

Source reference · html:#sec7 · Source licence: Not recorded for this source

Measurement and interpretation

Target: Bi signal associated with intracellular phosphorus-rich granules.
Readout: Spatially targeted elemental EDS signal interpreted alongside TEM morphology and the salicylate-grown control.
Unit: No unit recorded
Interpretation: Supports localization when Bi is detected in the intracellular regions; does not quantify total uptake or uniquely identify the Bi-containing chemical species.

Metabolism of Bismuth Subsalicylate and Intracellular Accumulation of Bismuth by Fusarium sp. Strain BI — Primary methods prepare washed 96-hour biomass from bismuth-subsalicylate and salicylate cultures for TEM-EDS of 60 nm sections.

Source reference · html:#sec7 · Source licence: Not recorded for this source
Metabolism of Bismuth Subsalicylate and Intracellular Accumulation of Bismuth by Fusarium sp. Strain BI — The localization analysis compares intracellular granules with the salicylate control and warns that the EDS beam samples surrounding material.

Source reference · html:#sec15 · Source licence: Not recorded for this source

Controls

Salicylate-grown biomass processed for the same microscopy/elemental comparison; its granules lacked detected Bi in the reported comparison.

Metabolism of Bismuth Subsalicylate and Intracellular Accumulation of Bismuth by Fusarium sp. Strain BI — Primary methods prepare washed 96-hour biomass from bismuth-subsalicylate and salicylate cultures for TEM-EDS of 60 nm sections.

Source reference · html:#sec7 · Source licence: Not recorded for this source
Metabolism of Bismuth Subsalicylate and Intracellular Accumulation of Bismuth by Fusarium sp. Strain BI — The localization analysis compares intracellular granules with the salicylate control and warns that the EDS beam samples surrounding material.

Source reference · html:#sec15 · Source licence: Not recorded for this source

Scoped CMM relationships

Measures process · cmmmech:bismuth

Corpus: cmmmech

The target mechanism explicitly cites Dodge 2005 intracellular TEM-EDS localization; this assay scopes the link to that component of accumulation evidence.

Scope: Fusarium sp. BI; intracellular Bi localization by thin-section TEM-EDS, not the paper's separate soluble-Bi time course.

Target locator: /mechanisms/0

Linked source record: data/records/bismuth.yaml
Source revision: df061de720fb9884dcc6e41369a3049cef52a059

CMMMech bismuth mechanism at df061de720fb9884dcc6e41369a3049cef52a059 — The target mechanism explicitly cites Dodge 2005 intracellular TEM-EDS localization; this assay scopes the link to that component of accumulation evidence.

Source reference · /mechanisms/0 · Source licence: CC-BY-4.0
Metabolism of Bismuth Subsalicylate and Intracellular Accumulation of Bismuth by Fusarium sp. Strain BI — The localization analysis compares intracellular granules with the salicylate control and warns that the EDS beam samples surrounding material.

Source reference · html:#sec15 · Source licence: Not recorded for this source

Research gaps

protocol_parameters: This summary does not establish a quantitative detection limit, independent culture replicate count or calibrated mass-uptake conversion for TEM-EDS.

Curation provenance

Recorded curation events
UTC timestamp	Action and curator	Summary
2026-11-09T02:38:32Z	CREATE · assay-stream-c	Curate initial sourced assay concept or scoped operational assay History source