Overview
- External ontology
- TOGO:M3032 — Chloroflexus Aggregans Medium
- Applications
-
- Microbial cultivation
- Notes
- Source: https://togomedium.org/medium/M3032 Original source: JCM - JCM_M1398 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=1398
Composition
flowchart LR
CultureMech_009544["chloroflexus_aggregans_medium"]
ing0_Distilled_water["Distilled water"]
CultureMech_009544 --> ing0_Distilled_water
CHEBI_15377["CHEBI:15377"]
ing0_Distilled_water -.-> CHEBI_15377
ing1_MgSO4_7H2O["MgSO4·7H2O"]
CultureMech_009544 --> ing1_MgSO4_7H2O
CHEBI_31795["CHEBI:31795"]
ing1_MgSO4_7H2O -.-> CHEBI_31795
ing2_NaCl["NaCl"]
CultureMech_009544 --> ing2_NaCl
CHEBI_26710["CHEBI:26710"]
ing2_NaCl -.-> CHEBI_26710
ing3_CaCl2_2H2O["CaCl2·2H2O"]
CultureMech_009544 --> ing3_CaCl2_2H2O
CHEBI_86158["CHEBI:86158"]
ing3_CaCl2_2H2O -.-> CHEBI_86158
ing4_NaNO3["NaNO3"]
CultureMech_009544 --> ing4_NaNO3
CHEBI_63005["CHEBI:63005"]
ing4_NaNO3 -.-> CHEBI_63005
ing5_KNO3["KNO3"]
CultureMech_009544 --> ing5_KNO3
CHEBI_63043["CHEBI:63043"]
ing5_KNO3 -.-> CHEBI_63043
ing6_Na2HPO4_2H2O["Na2HPO4·2H2O"]
CultureMech_009544 --> ing6_Na2HPO4_2H2O
CHEBI_34683["CHEBI:34683"]
ing6_Na2HPO4_2H2O -.-> CHEBI_34683
ing7_Glycyl_glycine["Glycyl-glycine"]
CultureMech_009544 --> ing7_Glycyl_glycine
CHEBI_17201["CHEBI:17201"]
ing7_Glycyl_glycine -.-> CHEBI_17201
ing8_Yeast_extract__BD_Difco_["Yeast extract (BD-Difco)"]
CultureMech_009544 --> ing8_Yeast_extract__BD_Difco_
ing9_N2["N2"]
CultureMech_009544 --> ing9_N2
CHEBI_17997["CHEBI:17997"]
ing9_N2 -.-> CHEBI_17997
ing10_Na2S_9H2O["Na2S·9H2O"]
CultureMech_009544 --> ing10_Na2S_9H2O
CHEBI_76209["CHEBI:76209"]
ing10_Na2S_9H2O -.-> CHEBI_76209
ing11_2_M_H2SO4["2 M H2SO4"]
CultureMech_009544 --> ing11_2_M_H2SO4
ing12_Biotin["Biotin"]
CultureMech_009544 --> ing12_Biotin
CHEBI_15956["CHEBI:15956"]
ing12_Biotin -.-> CHEBI_15956
ing13_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
CultureMech_009544 --> ing13_p_Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing13_p_Aminobenzoic_acid -.-> CHEBI_30753
ing14_Ca_pantothenate["Ca-pantothenate"]
CultureMech_009544 --> ing14_Ca_pantothenate
CHEBI_29032["CHEBI:29032"]
ing14_Ca_pantothenate -.-> CHEBI_29032
ing15_Pyridoxine_HCl["Pyridoxine-HCl"]
CultureMech_009544 --> ing15_Pyridoxine_HCl
CHEBI_30961["CHEBI:30961"]
ing15_Pyridoxine_HCl -.-> CHEBI_30961
ing16_Folic_acid["Folic acid"]
CultureMech_009544 --> ing16_Folic_acid
CHEBI_27470["CHEBI:27470"]
ing16_Folic_acid -.-> CHEBI_27470
ing17_Vitamin_B12["Vitamin B12"]
CultureMech_009544 --> ing17_Vitamin_B12
CHEBI_176843["CHEBI:176843"]
ing17_Vitamin_B12 -.-> CHEBI_176843
ing18_Nicotinic_acid["Nicotinic acid"]
CultureMech_009544 --> ing18_Nicotinic_acid
CHEBI_15940["CHEBI:15940"]
ing18_Nicotinic_acid -.-> CHEBI_15940
ing19_Thiamine_HCl_2H2O["Thiamine-HCl·2H2O"]
CultureMech_009544 --> ing19_Thiamine_HCl_2H2O
CHEBI_132751["CHEBI:132751"]
ing19_Thiamine_HCl_2H2O -.-> CHEBI_132751
ing20_Na3_EDTA["Na3-EDTA"]
CultureMech_009544 --> ing20_Na3_EDTA
CHEBI_64734["CHEBI:64734"]
ing20_Na3_EDTA -.-> CHEBI_64734
Ingredients (21)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Distilled water
H2O 18.015 g/mol
|
1250.0 G_PER_L |
CHEBI:15377
water
|
Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Merged 3 duplicates: 1050.0, 100.0, 100.0] |
| 2 |
MgSO4·7H2O
7H2O.Mg.O4S 246.473 g/mol
|
0.1 G_PER_L |
CHEBI:31795
magnesium sulfate heptahydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 3 |
NaCl
Cl.Na 58.443 g/mol
|
0.1 G_PER_L |
CHEBI:26710
sodium chloride
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 4 |
CaCl2·2H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.05 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 5 |
NaNO3
NO3.Na 84.994 g/mol
|
0.5 G_PER_L |
CHEBI:63005
sodium nitrate
|
Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component |
| 6 |
KNO3
K.NO3 101.102 g/mol
|
0.1 G_PER_L |
CHEBI:63043
potassium nitrate
|
Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component |
| 7 |
Na2HPO4·2H2O
HO4P.2Na 141.958 g/mol
|
0.1 G_PER_L |
CHEBI:34683
disodium hydrogenphosphate
|
Role: Buffer; Properties: Inorganic compound, Defined component, Simple component |
| 8 |
Glycyl-glycine
C4H8N2O3 132.119 g/mol
|
1 G_PER_L |
CHEBI:17201
glycylglycine
|
Role: Nitrogen source; Properties: Organic compound, Defined component, Simple component |
| 9 | Yeast extract (BD-Difco) | 1 G_PER_L | Properties: Undefined component | |
| 10 |
N2
N2 28.014 g/mol
|
variable VARIABLE |
CHEBI:17997
dinitrogen
|
Properties: ガス |
| 11 |
Na2S·9H2O
9H2O.2Na.S 240.182 g/mol
|
3 G_PER_L |
CHEBI:76209
sodium sulfide nonahydrate
|
Role: Reducing agent; Properties: Inorganic compound, Defined component, Simple component |
| 12 | 2 M H2SO4 | variable VARIABLE | Role: Mineral source; Properties: Defined component, Inorganic compound, Solution | |
| 13 |
Biotin
C10H16N2O3S 244.316 g/mol
|
5 G_PER_L |
CHEBI:15956
biotin
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 14 |
p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
50 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 15 |
Ca-pantothenate
C9H16NO5 218.229 g/mol
|
50 G_PER_L |
CHEBI:29032
(R)-pantothenate
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 16 |
Pyridoxine-HCl
C8H11NO3.HCl 205.641 g/mol
|
50 G_PER_L |
CHEBI:30961
pyridoxine hydrochloride
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 17 |
Folic acid
C19H19N7O6 441.404 g/mol
|
50 G_PER_L |
CHEBI:27470
folic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 18 | Vitamin B12 | 1 G_PER_L |
CHEBI:176843
vitamin B12
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 19 |
Nicotinic acid
C6H5NO2 123.111 g/mol
|
100 G_PER_L |
CHEBI:15940
nicotinic acid
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 20 |
Thiamine-HCl·2H2O
C12H18N4OS.2Cl.2H2O 373.306 g/mol
|
100 G_PER_L |
CHEBI:132751
thiamine hydrochloride dihydrate
|
Role: Vitamin; Properties: Organic compound, Defined component, Simple component |
| 21 |
Na3-EDTA
C10H14N2O8.2Na 336.208 g/mol
|
200 G_PER_L |
CHEBI:64734
EDTA disodium salt (anhydrous)
|
Properties: Defined component, Simple component, Organic compound |
Solutions
Fe(III) citrate solution (0.1 g in 100 ml)
Dose: 5 G_PER_L
Role: Mineral source; Properties: Organic compound, Defined component, Solution
SL-6 trace element solution (see Medium [M158])
Dose: 1 G_PER_L
Cross-reference to Medium M158
Neutralized sulfide solution
Dose: 1 G_PER_L
Vitamin solution CA
Dose: 0.1 G_PER_L
See mediadive_5560_Vitamin_solution_CA.yaml for composition
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T06:35:53.705832Z | togo-import | Imported from TOGO Medium | Source: JCM, ID: M3032 |
| 2026-01-28T19:48:31.988415Z | chebi-enrichment | Added CHEBI ontology terms to ingredients | Enriched using MicrobeMediaParam and MediaDive chemical mappings |
| 2026-02-03T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default concentration for ingredient: N2; Added default concentration for ingredient: 2 M H2SO4; Added default concentration for ingredient: N2 |
| 2026-03-09T08:04:53.182773+00:00 | solution-migrator-v1.0 | Migrated solutions from ingredients to solutions array | Moved 4 solution(s) from ingredients |
| 2026-03-13T03:09:24.630839Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 3 duplicate ingredient(s) |
| 2026-03-13T06:20:06.745102Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:009544 |
| 2026-03-14T00:00:00+00:00 | schema-defaulter-v1.0 | Applied schema defaults and normalizations | Added default solution name; Added default solution name; Added default solution name; Added default solution name |
| 2026-03-17T06:30:33.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:25.769944+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "Chloroflexus Aggregans Medium" to "chloroflexus_aggregans_medium" for consistent matching |
| 2026-05-16T09:03:16.473804+00:00 | migrate_legacy_fields.py | MIGRATED_LEGACY_FIELDS | curation_history.date->timestamp=2 |
| 2026-06-05T07:40:39.746308+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 16 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-08T23:19:33.835812+00:00 | chebi-regrounding-v1.0 | Corrected CHEBI ingredient grounding (audit G21/G22) | Re-grounded 2 term reference(s) to the correct CHEBI (see reports/chebi_grounding_audit.md). Label-conditional fixes for pyridoxine/pyridoxamine, glycerol, MnSO4, Ca(NO3)2, selenate; casamino acids de-grounded (mixture, no single CHEBI). |
| 2026-06-10T06:57:29.145802+00:00 | mgso4-heptahydrate-term-fix-v1.0 | Corrected MgSO4·7H2O primary term grounding to heptahydrate | Re-grounded 1 heptahydrate-labelled ingredient(s) from CHEBI:32599 (generic magnesium sulfate) to CHEBI:31795 (magnesium sulfate heptahydrate). Generic/hexahydrate labels untouched. |