Overview
- External ontology
- komodo.medium:1157 (source link unavailable) — PYEM medium
- Applications
-
- Microbial cultivation
- pH
- 7.0
- Notes
- Source: KOMODO ModelSEED | ID: 1157 | DSMZ Medium: 1157 (mediadive.medium:1157) | Aerobic: No Stock stages and water inputs are explicit. Percentage bases, stock solvents and measured final volume are not supplied by these sources; no downstream dilution or growth claim is inferred. Existing chemical mappings and high_metal/other historical flags are retained but not validated by this concentration repair.
Composition
flowchart LR
CultureMech_003867["pyem_medium"]
ing0_Peptone["Peptone"]
CultureMech_003867 --> ing0_Peptone
ing1_Yeast_extract["Yeast extract"]
CultureMech_003867 --> ing1_Yeast_extract
ing2_NH4Cl["NH4Cl"]
CultureMech_003867 --> ing2_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing2_NH4Cl -.-> CHEBI_31206
ing3_Distilled_water["Distilled water"]
CultureMech_003867 --> ing3_Distilled_water
Ingredients (4)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 | Peptone | 2 G_PER_L | Source batch input: 2 g. Retained 2 g/L is the provider's nominal 1000 ml recipe rate, not a measured basal or final-medium concentration after stock additions. | |
| 2 | Yeast extract | 2 G_PER_L | Source batch input: 2 g. Retained 2 g/L is the provider's nominal 1000 ml recipe rate, not a measured basal or final-medium concentration after stock additions. | |
| 3 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.5 G_PER_L |
CHEBI:31206
ammonium chloride
|
Source batch input: 0.5 g. Retained 0.5 g/L is the provider's nominal 1000 ml recipe rate, not a measured basal or final-medium concentration after stock additions. |
| 4 | Distilled water | 1 L |
mediadive.compound:4 (source link unavailable)
Distilled water
|
Source batch input: 1000 ml distilled water = 1 L. This is not a volume percentage or a measured final-medium volume. |
Solutions
Riboflavin stock
Dose: 0.005 L
| Ingredient | Concentration | Notes |
|---|---|---|
| Riboflavin | 0.2 MG_PER_ML | Source-explicit riboflavin stock strength: 0.2 mg/ml. The source's 5 ml is a stock addition volume, not 5 g/L or 5% v/v. No final-medium concentration is inferred. |
Source batch dose: 5 ml stock / 1000 ml per L = 0.005 L. This is an input volume, not a dose per liter of measured final medium.
Glucose stock
Dose: 0.002 L
| Ingredient | Concentration | Notes |
|---|---|---|
| Glucose | Source stock label: 50%; percentage basis unspecified. The flattened recipe quantity is withdrawn at this stock stage. No mass/volume percentage basis, density, stock solvent or final-medium concentration is inferred. |
Source batch dose: 2 ml stock / 1000 ml per L = 0.002 L. This is an input volume, not a dose per liter of measured final medium.
MgSO4 stock
Dose: 0.001 L
| Ingredient | Concentration | Notes |
|---|---|---|
| MgSO4 | Source stock label: 20%; percentage basis unspecified. The flattened recipe quantity is withdrawn at this stock stage. No mass/volume percentage basis, density, stock solvent or final-medium concentration is inferred. |
Source batch dose: 1 ml stock / 1000 ml per L = 0.001 L. This is an input volume, not a dose per liter of measured final medium.
CaCl2 stock
Dose: 0.001 L
| Ingredient | Concentration | Notes |
|---|---|---|
| CaCl2 | Source stock label: 10%; percentage basis unspecified. The flattened recipe quantity is withdrawn at this stock stage. No mass/volume percentage basis, density, stock solvent or final-medium concentration is inferred. |
Source batch dose: 1 ml stock / 1000 ml per L = 0.001 L. This is an input volume, not a dose per liter of measured final medium.
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T01:15:01.fZ | komodo-web-import | Imported from KOMODO web table | Source: KOMODO, ID: 1157 |
| 2026-02-03T11:19:17.992406 | dsmz-resolver-v1.0 | Enriched with DSMZ composition | Copied ingredients from DSMZ Medium 1157 |
| 2026-03-13T06:19:22.829900Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:003867 |
| 2026-03-17T06:30:51.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:45:37.277416+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "PYEM medium" to "pyem_medium" for consistent matching |
| 2026-06-05T07:40:19.447481+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 5 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T07:46:43.650328+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 2 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |
| 2026-10-08T08:51:23.684976+00:00 | codex | CORRECTED_DSMZ1157_1164_STOCK_STAGES_AND_INPUTS | Restored stock boundaries, exact source doses and water input. Unspecified percentage bases/drop volume remain unresolved. Preserved prior history and snippets, chemical mappings and unrelated flags; corrected only verified stale link paths. No final-volume, growth or new variant inference. |