Overview
- External ontology
- komodo.medium:876 (source link unavailable) — TD3-MEDIUM
- Applications
-
- Microbial cultivation
- pH range
- {'min': 6.7, 'max': 6.9}
- Notes
- Source: KOMODO ModelSEED | ID: 876 | DSMZ Medium: 876 (mediadive.medium:876) | Aerobic: Yes
Composition
flowchart LR
CultureMech_006713["td3_medium"]
ing0_Na2SO4["Na2SO4"]
CultureMech_006713 --> ing0_Na2SO4
CHEBI_32149["CHEBI:32149"]
ing0_Na2SO4 -.-> CHEBI_32149
ing1_KH2PO4["KH2PO4"]
CultureMech_006713 --> ing1_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing1_KH2PO4 -.-> CHEBI_63036
ing2_NH4Cl["NH4Cl"]
CultureMech_006713 --> ing2_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing2_NH4Cl -.-> CHEBI_31206
ing3_NaCl["NaCl"]
CultureMech_006713 --> ing3_NaCl
CHEBI_26710["CHEBI:26710"]
ing3_NaCl -.-> CHEBI_26710
ing4_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
CultureMech_006713 --> ing4_MgCl2_x_6_H2O
CHEBI_86345["CHEBI:86345"]
ing4_MgCl2_x_6_H2O -.-> CHEBI_86345
ing5_KCl["KCl"]
CultureMech_006713 --> ing5_KCl
CHEBI_32588["CHEBI:32588"]
ing5_KCl -.-> CHEBI_32588
ing6_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
CultureMech_006713 --> ing6_CaCl2_x_2_H2O
CHEBI_86158["CHEBI:86158"]
ing6_CaCl2_x_2_H2O -.-> CHEBI_86158
ing7_Sodium_resazurin["Sodium resazurin"]
CultureMech_006713 --> ing7_Sodium_resazurin
CHEBI_8806["CHEBI:8806"]
ing7_Sodium_resazurin -.-> CHEBI_8806
ing8_Na2CO3["Na2CO3"]
CultureMech_006713 --> ing8_Na2CO3
CHEBI_29377["CHEBI:29377"]
ing8_Na2CO3 -.-> CHEBI_29377
ing9_Na_caproate["Na-caproate"]
CultureMech_006713 --> ing9_Na_caproate
CHEBI_114126["CHEBI:114126"]
ing9_Na_caproate -.-> CHEBI_114126
ing10_Na_butyrate["Na-butyrate"]
CultureMech_006713 --> ing10_Na_butyrate
CHEBI_64103["CHEBI:64103"]
ing10_Na_butyrate -.-> CHEBI_64103
ing11_Na2S_x_9_H2O["Na2S x 9 H2O"]
CultureMech_006713 --> ing11_Na2S_x_9_H2O
CHEBI_76209["CHEBI:76209"]
ing11_Na2S_x_9_H2O -.-> CHEBI_76209
ing12_HCl["HCl"]
CultureMech_006713 --> ing12_HCl
CHEBI_17883["CHEBI:17883"]
ing12_HCl -.-> CHEBI_17883
ing13_ZnCl2["ZnCl2"]
CultureMech_006713 --> ing13_ZnCl2
CHEBI_49976["CHEBI:49976"]
ing13_ZnCl2 -.-> CHEBI_49976
ing14_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
CultureMech_006713 --> ing14_MnCl2_x_4_H2O
CHEBI_86368["CHEBI:86368"]
ing14_MnCl2_x_4_H2O -.-> CHEBI_86368
ing15_H3BO3["H3BO3"]
CultureMech_006713 --> ing15_H3BO3
CHEBI_33118["CHEBI:33118"]
ing15_H3BO3 -.-> CHEBI_33118
ing16_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
CultureMech_006713 --> ing16_CoCl2_x_6_H2O
CHEBI_53503["CHEBI:53503"]
ing16_CoCl2_x_6_H2O -.-> CHEBI_53503
ing17_CuCl2_x_2_H2O["CuCl2 x 2 H2O"]
CultureMech_006713 --> ing17_CuCl2_x_2_H2O
CHEBI_86318["CHEBI:86318"]
ing17_CuCl2_x_2_H2O -.-> CHEBI_86318
ing18_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
CultureMech_006713 --> ing18_NiCl2_x_6_H2O
CHEBI_34887["CHEBI:34887"]
ing18_NiCl2_x_6_H2O -.-> CHEBI_34887
ing19_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
CultureMech_006713 --> ing19_Na2MoO4_x_2_H2O
CHEBI_75213["CHEBI:75213"]
ing19_Na2MoO4_x_2_H2O -.-> CHEBI_75213
ing20_NaOH["NaOH"]
CultureMech_006713 --> ing20_NaOH
CHEBI_32145["CHEBI:32145"]
ing20_NaOH -.-> CHEBI_32145
ing21_Na2SeO3_x_5_H2O["Na2SeO3 x 5 H2O"]
CultureMech_006713 --> ing21_Na2SeO3_x_5_H2O
CHEBI_131361["CHEBI:131361"]
ing21_Na2SeO3_x_5_H2O -.-> CHEBI_131361
ing22_Na2WO4_x_2_H2O["Na2WO4 x 2 H2O"]
CultureMech_006713 --> ing22_Na2WO4_x_2_H2O
CHEBI_63939["CHEBI:63939"]
ing22_Na2WO4_x_2_H2O -.-> CHEBI_63939
ing23_Biotin["Biotin"]
CultureMech_006713 --> ing23_Biotin
CHEBI_15956["CHEBI:15956"]
ing23_Biotin -.-> CHEBI_15956
ing24_Folic_acid["Folic acid"]
CultureMech_006713 --> ing24_Folic_acid
CHEBI_27470["CHEBI:27470"]
ing24_Folic_acid -.-> CHEBI_27470
ing25_Thiamine_HCl["Thiamine HCl"]
CultureMech_006713 --> ing25_Thiamine_HCl
CHEBI_49105["CHEBI:49105"]
ing25_Thiamine_HCl -.-> CHEBI_49105
ing26_Riboflavin["Riboflavin"]
CultureMech_006713 --> ing26_Riboflavin
CHEBI_17015["CHEBI:17015"]
ing26_Riboflavin -.-> CHEBI_17015
ing27_Calcium_D_____pantothenate["Calcium D-(+)-pantothenate"]
CultureMech_006713 --> ing27_Calcium_D_____pantothenate
CHEBI_31345["CHEBI:31345"]
ing27_Calcium_D_____pantothenate -.-> CHEBI_31345
ing28__DL__alpha_Lipoic_acid["(DL)-alpha-Lipoic acid"]
CultureMech_006713 --> ing28__DL__alpha_Lipoic_acid
CHEBI_16494["CHEBI:16494"]
ing28__DL__alpha_Lipoic_acid -.-> CHEBI_16494
ing29_D_____biotin["D-(+)-biotin"]
CultureMech_006713 --> ing29_D_____biotin
ing29_D_____biotin -.-> CHEBI_15956
CultureMech_006713 --> more["...1 more"]
Ingredients (31)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Na2SO4
2Na.O4S 142.043 g/mol
|
3.9801 G_PER_L |
CHEBI:32149
sodium sulfate
|
|
| 2 |
KH2PO4
H2O4P.K 136.084 g/mol
|
0.199005 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
|
| 3 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.248756 G_PER_L |
CHEBI:31206
ammonium chloride
|
|
| 4 |
NaCl
Cl.Na 58.443 g/mol
|
19.9005 G_PER_L |
CHEBI:26710
sodium chloride
|
|
| 5 |
MgCl2 x 6 H2O
2Cl.6H2O.Mg 203.301 g/mol
|
9.75124 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
|
| 6 |
KCl
Cl.K 74.551 g/mol
|
0.497512 G_PER_L |
CHEBI:32588
potassium chloride
|
|
| 7 |
CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.0995025 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
|
| 8 |
Sodium resazurin
C12H7NO4 229.191 g/mol
|
0.000497512 G_PER_L |
CHEBI:8806
Resazurin
|
|
| 9 |
Na2CO3
CO3.2Na 105.988 g/mol
|
0.995025 G_PER_L |
CHEBI:29377
sodium carbonate
|
|
| 10 |
Na-caproate
C6H11O2.Na 138.142 g/mol
|
0.497512 G_PER_L |
CHEBI:114126
sodium hexanoate
|
|
| 11 |
Na-butyrate
C4H7O2.Na 110.088 g/mol
|
0.298507 G_PER_L |
CHEBI:64103
sodium butyrate
|
|
| 12 |
Na2S x 9 H2O
9H2O.2Na.S 240.182 g/mol
|
0.39801 G_PER_L |
CHEBI:76209
sodium sulfide nonahydrate
|
|
| 13 |
HCl
HCl 36.461 g/mol
|
2.5 G_PER_L |
CHEBI:17883
hydrogen chloride
|
|
| 14 |
ZnCl2
2Cl.Zn 136.296 g/mol
|
0.07 G_PER_L |
CHEBI:49976
zinc dichloride
|
|
| 15 |
MnCl2 x 4 H2O
Cl2Mn.4H2O 197.904 g/mol
|
0.1 G_PER_L |
CHEBI:86368
manganese(II) chloride tetrahydrate
|
|
| 16 |
H3BO3
H3BO3 61.833 g/mol
|
0.006 G_PER_L |
CHEBI:33118
boric acid
|
|
| 17 |
CoCl2 x 6 H2O
2Cl.Co.6H2O 237.929 g/mol
|
0.19 G_PER_L |
CHEBI:53503
cobalt chloride hexahydrate
|
|
| 18 |
CuCl2 x 2 H2O
Cl2Cu.2H2O 170.482 g/mol
|
0.002 G_PER_L |
CHEBI:86318
copper(II) chloride dihydrate
|
|
| 19 |
NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
|
0.024 G_PER_L |
CHEBI:34887
nickel dichloride
|
|
| 20 |
Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
|
0.036 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
|
| 21 |
NaOH
HO.Na 39.997 g/mol
|
0.5 G_PER_L |
CHEBI:32145
sodium hydroxide
|
|
| 22 |
Na2SeO3 x 5 H2O
5H2O.2Na.O3Se 263.012 g/mol
|
0.003 G_PER_L |
CHEBI:131361
disodium selenite pentahydrate
|
|
| 23 |
Na2WO4 x 2 H2O
2H2O.2Na.O4W 329.846 g/mol
|
0.004 G_PER_L |
CHEBI:63939
sodium tungstate dihydrate
|
|
| 24 |
Biotin
C10H16N2O3S 244.316 g/mol
|
0.02 G_PER_L |
CHEBI:15956
biotin
|
|
| 25 |
Folic acid
C19H19N7O6 441.404 g/mol
|
0.02 G_PER_L |
CHEBI:27470
folic acid
|
|
| 26 |
Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
0.05 G_PER_L |
CHEBI:49105
thiamine hydrochloride
|
|
| 27 |
Riboflavin
C17H20N4O6 376.369 g/mol
|
0.05 G_PER_L |
CHEBI:17015
riboflavin
|
|
| 28 |
Calcium D-(+)-pantothenate
2C9H16NO5.Ca 476.536 g/mol
|
0.05 G_PER_L |
CHEBI:31345
Calcium pantothenate
|
|
| 29 |
(DL)-alpha-Lipoic acid
C8H14O2S2 206.332 g/mol
|
0.05 G_PER_L |
CHEBI:16494
lipoic acid
|
|
| 30 |
D-(+)-biotin
C10H16N2O3S 244.316 g/mol
|
0.02 G_PER_L |
CHEBI:15956
biotin
|
|
| 31 |
Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
|
0.1 G_PER_L |
CHEBI:31345
Calcium pantothenate
|
Solutions
Trace element solution SL-10
| Ingredient | Concentration | Notes |
|---|---|---|
| FeCl2 x 4 H2O | 1.5 G_PER_L |
Seven vitamins solution
| Ingredient | Concentration | Notes |
|---|---|---|
| Thiamine-HCl x 2 H2O | 0.2 G_PER_L | |
| Nicotinic acid | 0.2 G_PER_L | [Merged 2 duplicates: 0.05, 0.2] |
| p-Aminobenzoic acid | 0.08 G_PER_L | [Merged 2 duplicates: 0.05, 0.08] |
| Pyridoxine hydrochloride | 0.3 G_PER_L | [Merged 2 duplicates: 0.1, 0.3] |
| Vitamin B12 | 0.1 G_PER_L | [Merged 2 duplicates: 0.001, 0.1] |
Wolin's vitamin solution (10x)
| Ingredient | Concentration | Notes |
|---|---|---|
| Nicotinic acid | 0.05 G_PER_L | [Merged 2 duplicates: 0.05, 0.2] |
| p-Aminobenzoic acid | 0.05 G_PER_L | [Merged 2 duplicates: 0.05, 0.08] |
| Pyridoxine hydrochloride | 0.1 G_PER_L | [Merged 2 duplicates: 0.1, 0.3] |
| Vitamin B12 | 0.001 G_PER_L | [Merged 2 duplicates: 0.001, 0.1] |
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-27T01:15:03.fZ | komodo-web-import | Imported from KOMODO web table | Source: KOMODO, ID: 876 |
| 2026-02-03T11:19:07.355859 | dsmz-resolver-v1.0 | Enriched with DSMZ composition | Copied ingredients from DSMZ Medium 876 |
| 2026-02-06T05:10:34.075997Z | invalid-chebi-removal | Removed 1 invalid CHEBI ID(s) | Removed CHEBI IDs with invalid format (7+ digits) from MicrobeMediaParam source data |
| 2026-03-13T03:09:11.843695Z | data-quality-cleanup-v1.0 | Data quality fixes | Merged 4 duplicate ingredient(s) |
| 2026-03-13T06:19:43.270824Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:006713 |
| 2026-03-17T06:30:18.000000Z | mediaingredientmech-enrichment-v1.0 | Added MediaIngredientMech links | Linked ingredients to MediaIngredientMech identifiers |
| 2026-03-17T19:46:01.003629+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "TD3-MEDIUM" to "td3_medium" for consistent matching |
| 2026-05-20T06:00:54.455340+00:00 | migrate_ph_range.py | MIGRATED_PH_RANGE | ph_range '6.7-6.9' -> {'min': 6.7, 'max': 6.9} |
| 2026-06-05T07:40:27.253200+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 35 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T07:46:46.164868+00:00 | primary-term-label-canonicalization-v1.0 | Canonicalized primary term label to OBO canonical (OAK) | 6 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi. |
| 2026-08-15T00:17:28.577146+00:00 | apply_cocktail_nesting.py | NESTED_FLATTENED_COCKTAIL | Moved 6 stock-strength component(s) out of ingredients into 3 solution(s): 1 -> 'Trace element solution SL-10' @ 1 ml/l; 1 -> 'Seven vitamins solution' @ 1 ml/l; 0 -> "Wolin's vitamin solution (10x)" @ 1 ml/l. 4 component(s) were SUMMED across stocks by the flattening and are restored to each stock's own value, verified by exact sum: nicotinic acid, p-aminobenzoic acid, pyridoxine hydrochloride, vitamin b12. Each moved component matched the MediaDive stock by name AND value; bulk ingredients sharing a name were left in place (#150). |
| 2026-08-15T05:34:46.264377+00:00 | promote_komodo_volume_candidates.py | SHARPENED_VOLUME_COUNTEREVIDENCE | This record reproduces MediaDive medium 876 ('DESULFOTHERMUS NAPHTHAE MEDIUM') across 37 shared compounds at 89% identical values. That is short of the exact agreement required to assert the volume, so it stays a candidate (#262). |
| 2026-08-15T05:57:18.465295+00:00 | promote_komodo_volume_candidates.py | SHARPENED_VOLUME_COUNTEREVIDENCE | This record reproduces MediaDive medium 876 ('DESULFOTHERMUS NAPHTHAE MEDIUM') across 37 shared compounds at 89% identical values, 12 of them from that medium's main solution. That is short of the exact agreement required to assert the volume, so it stays a candidate (#262). |